Search This Blog

Saturday, 6 October 2018

How is Christ Jehovah's wisdom

A Reply to 
James Patrick Holding's-Jesus: God's Wisdom 
"My lord has wisdom like that of an angel of God-he knows everything that happens in the land." 2 Sam 14:20 NIV 

Unless otherwise stated, all Scripture quotations are taken from the American Standard Version (ASV) 1901

JPH: In order to support the traditional Christian view of the relationship of Jesus to the Father, we must understand the background for certain claims about the nature and identity of Jesus in the New Testament.
Reply: Should we try to find support for the traditional [Trinitarian] view, or the view "which God entrusted to his people once and for all." Jude 3, NEB
"Inasmuch as their individual salvation depends on holding faith, which involves receiving and believing Christian dogma, they find it very difficult to ask themselves how doctrine developed. If it developed historically, can it be what it must be in order to be a faith capable of saving us, the 'faith once delivered to the saints'? 
It is a simple and undeniable fact historical fact that several major doctrines that now seem central to the Christian faith-such as the doctrine of the Trinity and the doctrine of the deity of Christ-were not present in a full and well-defined, generally accepted form until the fourth of fifth centuries. If they are essential today-as all of the orthodox creeds and confessions assert-it must be because they are true. If they are true, then they must always have been true; they cannot have become true in the fourth or fifth century. But if they are both true and essential, how can it be that the early church took centuries to formulate them?"
Heresies, p. 20, by Harold O.J. Brown
"The Christology of the apologies, like that of the New Testament, is essentially subordinationist.  The Son is always subordinate to the Father, who is the one God of the Old Testament.  . . .What we find in these early authors, then, is not a doctrine of the Trinity. . . .Before Nicaea, Christian theology was almost universally subordinationist." Grant, Robert McQueen  (b.1917-d.?).  Gods and the One God.  1st ed.  (Philadelphia: Westminster Press, c1986), pp. 109, 156, 160.  BL785 .G69 1986 / 85-011443.
Instead of a developed Catholic theology that Holding is clinging to desperately, would not the first realization of Christianity naturally be the best, as opposed to a later one that is tainted and homogenized? 
"It follows from this premise that any 'development' of Christianity must be seen as a decline." p. 68, The Real Jesus, Luke Timothy Johnson 
Starting with an incorrect a priori assumption is never a way one must conduct research.
JPH: Proverbs 8:22-30 "The LORD possessed me in the beginning of his way, before his works of old. I was set up from everlasting, from the beginning, or ever the earth was. When there were no depths, I was brought forth; when there were no fountains abounding with water. Before the mountains were settled, before the hills was I brought forth: While as yet he had not made the earth, nor the fields, nor the highest part of the dust of the world. When he prepared the heavens, I was there: when he set a compass upon the face of the depth: When he established the clouds above: when he strengthened the fountains of the deep: When he gave to the sea his decree, that the waters should not pass his commandment: when he appointed the foundations of the earth: Then I was by him, as one brought up with him: and I was daily his delight, rejoicing always before him..." 
This passage is one of several in the Old Testament (see Ps. 58:10, 107:42; Job 11:14) in which abstract qualities are 
personified, following an Ancient Near Eastern tradition of personification. (Derek Kidner, The Wisdom of Proverbs, Job and 
Ecclesiastes, 44.) Here, and in other parts of Proverbs, Wisdom "makes claims for herself which are elsewhere made only by, 
or for, God."
Reply: Here JPH quotes from the KJV. Another alternative rendering that must strongly be considered is from the Revised Standard Version:
"The LORD created me at the beginning of his work, the first of his acts of old. Ages ago I was set up, at the first, before the beginning of the earth. When there were no depths I was brought forth ["I was born" New Jerusalem Bible], when there were no springs abounding with water. Before the mountains had been shaped, before the hills, I was brought forth ["I came to birth" NJB]; before he had made the earth with its fields, or the first of the dust of the world. When he established the heavens, I was there, when he drew a circle on the face of the deep, when he made firm the skies above, when he established the fountains of the deep, when he assigned to the sea its limit, so that the waters might not transgress his command, when he marked out the foundations of the earth, then I was beside him, like a master workman; and I was daily his delight, rejoicing before him always."
Are these verses only personified abstract qualities? Let us take a look at JPH's proof-texts, starting with Ps 58:10: 
"Sooner than your pots can feel the heat of thorns, whether green or ablaze, may he sweep them away!" This verse, and the ones before them give examples of what some are likened to. I don't see personification here. 
Ps 107:42: "The upright see it and are glad; and all wickedness stops its mouth." 
Again, no personification here. It simply is another way of saying that "the wicked are stricken silent." NLT 
Job 11:14: "If iniquity is in your hand, put it far away, and let not wickedness dwell in your tents." Again, this is not really a parallel personification to Wisdom, is it?  It basically means to "leave all iniquity behind you." NLT 
Where do we any of these supposed examples talking, as Wisdom does? 
Additionally, where does Wisdom make claims only reserved for God, if Wisdom is "created", "born" and given "birth" to? 
The Commentary Critical and Explanatory on the Whole Bible Jamieson, Fausset, Brown 
"(1) Though described as with God, wisdom is not asserted to be God."
JPH: I found Stafford a very amusing read in ways because although he has some hints about Wisdom, he doesn't see the connection and how it refutes his view of Jesus -- most likely because he has no view at all into the intertestamental literature that founded the "crucial conceptual category" that the NT writers put Jesus into. In this light, I found much of Stafford's material quite irrelevant. The question, "Is Jesus Jehovah?" doesn't require a yes or no answer from our side. Wisdom covers this -- Jesus may have been going around as "Jehovah" (Yahweh) at times in the OT, using that name in his pre-incarnate dealings, but Proverbs 8, as we show in the linked essay, would suggest that there isn't a one-to-one correspondence.
Reply: I find Holding's review of Stafford's book *amusing*, as he absolutely ignores the EVIDENCE, and even misrepresents his findings. Why is the birth imagery in Stafford simply glossed over in JPH's article? 
In Ps 139:13 we have the psalmist saying that God "knit me together in my mother's womb." Job 10:11 has Job saying to God "clothe me with skin and flesh, and weave me of bone and sinew."
"The process of gestation in both cases is described metaphorically in terms of a craft. Furthermore, significantly for our structural study is the fact that in Ps 139:13 [qanah] parallels [sakhak, 'weave together'], which is the same situation we have here in Prov 8:22-23. While the usual meaning of the root qanah is >>to buy or acquire,<< the verb is used in Gen 4:1 and Dtn 32:6 as well as in Ps 139:13 where the parenting aspect is unmistakable. The third parallel verb in Prov 8:24, [kholalti], <
This is why Beck's An American Translation has: 
"The LORD became My Father at the beginning of His way...before there was any ocean, I was born." 
Adam Clarke states:
"Verse 30. Then I was with him, as one brought up ] wma amon, a nursling, a darling child. Wisdom continues its parable, says Calmet; and represents itself as a new-born child which is ever near its parent, and takes pleasure to see him act, and to sport in his presence. This is poetical and highly figurative; and they who think they find the deity of Jesus Christ in these metaphors should be very cautious how they apply such terms as these; so that while they are endeavouring to defend the truth, they may do nothing against the truth, in which most of them unhappily fail."
I think JPH has failed in this regard also. 
This birth imagery leads to a temporal/filial connection that cannot be denied. If we use the Bible to interpret the Bible, then we are left with the undeniable fact that something/someone that was given birth to, something that was acquired, something that was created indicates that there was a time before birth, when it did not exist, a time when you simply did not possess that thing you later acquired, and so on. 
Jehovah is "One that is perfect in knowledge" [Job 36:4; 37:16 ASV] there was no need for Him to acquire or possess a special type of knowledge at a later time. This is left for imperfect humans: 
"How great is he who has acquired wisdom; but unsurpassed is one who fears the Lord." Ecclus 25:10 
Dake's Annotated Bible on Prov 8:30, while pointing to other Scriptures he believes teach the deity of Christ, states: "Wisdom is pictured as a child ever near its parent and watching him in his work. THERE IS NO PROOF HERE OF THE DEITY OF CHRIST...Wisdom is simply personified in all this passage ...and it has no clear reference to Christ." 
You see, when Proverbs 8 is honestly dealt with, the conclusion is that it is damaging to trinitarians, and, as even Adam Clarke admits, does more harm than good. That is why there is a concerted effort to NOT associate Christ with Wisdom.
JPH, like many others such as Robert Bowman, like to mix up various references to Wisdom as if they are pertaining to the same thing. But such usage is as unfair as stating that all mentions of the Word must have Jesus as a referent. 
For instance, this example from JPH:

 The might of his wisdom he measures out, He is the same from eternity. Nothing is added and nothing is withdrawn, and there is no need for anyone to instruct him." (42:18-21) Wisdom is an attribute of God, and is co-eternal with Him -- otherwise, Wisdom is a thing "added" to Him, or someone has "instructed" Him. Bauckham makes a similar observation concerning a much later passage: "2 Enoch 33:4, in an echo of Deutero-Isaiah (Isa. 40:13), says that God had no advisor in his work of creation, but that his Wisdom was his advisor. The meaning is clearly that God had no one to advise him. His Wisdom, who is not someone else but intrinsic to his own identity, advised him." Richard Bauckham, God Crucified: Monotheism and Christology in the New Testament , 21. [Bold Emphasis Mine]
Is Wisdom used only ONE WAY in the Bible? No (see below)! What does 2 Enoch 33:4 really say? 
"There is no counselor and no successor, only myself, eternal, not made by hands. My unchanging thought is (my ) counselor, and (my) word is my deed. And my eyes behold all things. If I turn my face away, then all falls into destruction; but if I look at it, then all is stable." 
There is no mention of Wisdom as advisor here at all! The closest mention of wisdom is the preceding verse where we have God using wisdom to write books. 
God here is not made by hands, yet Wisdom in Prov 8 is pictured as a handiwork of God. 
Wisdom was not His advisor, His thoughts were. The above should give one pause as to the lengths some people will go to, to buttress an errant theology. 
Though not mentioned in JPH's article, Bauckham then goes on to assert, according to 1 Enoch 84:2, 3, (and Wisdom 9:4, 10) that Wisdom is sitting besides God's throne, and that this is "not parallel to the depictions of exalted angels." 
Firstly, my copy of Enoch 84 says nothing of the kind, and it is described as difficult, as Bauckham's translation of it is stated as a scribal "emendation." [1 Enoch, A New Translation by E. Isaac] Secondly, Wisdom 9 is sufficient however as one sitting by God's throne, but Bauckham completely ignores Enoch 3, where we have the "exalted" angel Metatron, "the lesser YHWH", contradicting this professor, as he has special privileges in relation to God's position, for he is the "Prince of the Divine Presence." 
See Footnote 2 
In line also with the Lamb sharing the throne of God (Rev 22:1, 3, cf. 1 Chron 29:23), Metatron also becomes enthroned (1 Enoch 55:4; 61:8; 62:1-5; 69:29; 3 Enoch 10:1-3; 16:1). 
But back to our subject, wisdom can have many connotations, but not in Prov 8:22-30.
"The portrayal of Wisdom in 1.20-33 and ch. 8 is not the same as in the instructions. She is no longer spoken of in the third person, but is herself a speaker: apart from the short introductions which set the scene (1.20-21; 8:1-3). the whole of these two long poems consist of her words, which she delivers in public. Instead of being a shadowy if important figure, she now appears as a fully fledged character." The Composition of the Book of Proverbs, p. 35, R, N Whybray
Following this we have "15 ways *wisdom* is used" according to Dake's Annotated Bible: 
1) Human education (Acts 7:22) 
2) Man's wisdom (1 Cor. 1:19-22; 2:1-13) 
3) Human philosophy and religion (Col. 2:23; 1 Cor. 3:19; 2 Cor. 1:12; Gal 1:14) 
4) Earthly, sensual, devilish wisdom (Jas. 3:14-16) 
5) Prophetic anointing (Lk. 11:49) 
6) Godly training (Lk. 2:40, 52) 
7) Anointing to speak (Lk. 21:15; Acts 6; 1 Cor. 2:7) 
8) Ministerial ability (Eph. 1:8, 17; 3:10; Col 1:19, 28) 
9) Christ the wisdom of God (1 Cor. 1:24, 30; Col. 2:3; 3:16) 
10) Divine gift of wisdom (1 Cor. 12:8) 
11) Divine attribute of God (Rom. 11) 
12) Heavenly wisdom (Jas. 3:17-17, 33) 
13) Spirit of revelation (2 Pet. 3:15) 
14) Ability of Christ (Mt. 12:42; 13:54) 
15) Native insight (Rev. 13:18; 17:9) 
Again, it is unreasonable to think there was a time when God did not possess wisdom. He did not need to acquire it, or even aspects of it at a later time.
JPH:  A "created" interpretation of qanah is based on false suppositions. Note how qanah is used in other passages where the context admits no such meaning:
Gen. 4:1 And Adam knew Eve his wife; and she conceived, and bare Cain, and said, I have gotten a man from the LORD.
Gen. 25:10 The field which Abraham purchased of the sons of Heth: there was Abraham buried, and Sarah his wife.(cf. 33:19, 47:20, 50:13, where others qanah land, obviously not "creating" it)
Lev. 25:15 According to the number of years after the jubilee thou shalt buy of thy neighbour, and according unto the number of years of the fruits he shall sell unto thee:
1 Kings 16:24 And he bought the hill Samaria of Shemer for two talents of silver, and built on the hill, and called the name of the city which he built, after the name of Shemer, owner of the hill, Samaria.
All of these should provivde substantial object lessons that merely quoting English versions is a hazardous exercise! Now that said, what of qanah? It is not "created"; the word for that is bara in the creation account. As noted, Vawter sees Wisdom as an "outside acquisition" of an independent being, a view neither Trinitarians nor JWs can accept. No one sees God getting Wisdom or Jesus on cash or credit! But there are cites that show that qanah is concerned with the "possession" aspect of the interchange process, rather than the "transaction" aspect:
Gen. 14:19 And he blessed him, and said, Blessed be Abram of the most high God, possessor of heaven and earth: 
Prov. 1:5 A wise man will hear, and will increase learning; and a man of understanding shall attain unto wise counsels: 
Prov. 4:5 Get wisdom, get understanding: forget it not; neither decline from the words of my mouth.
Clearly "wisdom" is not something we create or acquire from outside; we cultivate our own attributes from within.
Reply: We do not create persons called Wisdom, because we are not creators. Jehovah, as being perfect in wisdom, has no need to cultivate it. Proverbs 4:5 parallels "wisdom" with "understanding," clearly the personified Wisdom is not referred to here. Holding's article also completely ignores the LXX translation of this word. 
The LXX (Septuagint), the very first translation of the Holy Scriptures, made several centuries before Christ, and was used by him and by the Apostles, had a variety of words it could have used for Qanah at Prov 8:22 [for instance KTAOMAI, LAMBANW, DECOMAI], but it settled on one. The Greek word for "Created" is EKTISEN (#2936). It is used at Mark 13:19; 1Tim 4:3 and Revelation 10:6. The Septuagint uses this word only once in Proverbs, and that is at chapter 8 verse 22. This is how this word (qanah) was understood by the Jews and early Christians in this verse. 
Bullinger states in his Companion Bible: "Heb. kanah. Occurs 86 times in O.T.; rendered 'possess' only four times...Sept. and Syr. render it 'created.'"
From a footnote on the NET translation of Proverbs 8:22 found at www.bible.org:

“There are two roots in Hebrew, one meaning ‘to possess,’ and the other meaning ‘to create.’ The older translations did not know of the second root, but suspected in certain places that a meaning like that was necessary (e.g., Genesis 4:1; 14:19; Deuteronomy 32:6). Ugaritic confirmed that it was indeed another root. The older versions have the translation ‘possess’ because otherwise it sounds like God lacked wisdom and therefore created it at the beginning. They wanted to avoid saying that wisdom was not eternal. Arius liked the idea of Christ as the wisdom of God and so chose the translation ‘create.’ Athanasius translated it, ‘constituted me as the head of creation.’ The verb occurs twelve times in Proverbs with the meaning of ‘to acquire’; but the Greek and the Syriac versions have the meaning ‘create.’ Although the idea is that wisdom existed before creation, the parallel ideas in these verses (‘appointed,’ ‘given birth’) argue for the translation of ‘create’ or ‘establish’ (R. N. Whybray, ‘Proverbs 8:22-31 and Its Supposed Prototypes,’VT 15 [1965]: 504-14; and W. A. Irwin, ‘Where Will Wisdom Be Found?’ JBL 80 [1961]: 133-42).” Many translators render qanahas “created.”.
“Gesenius gives as the primary meaning of qanah: ‘to get, to gain, to obtain, to acquire.’ Davies gives it the meaning of ‘to form or make, to get or acquire, to gain or buy.’ Strong defines qanah as ‘to erect, i.e., to create; by extension to procure, especially by purchase.’ ” —The Great Debate, by Robert Wagoner
The following passages translate in the KJV, the word “qanah” as buy, bought or buyer.

Gen. 25:10 
33:19 
39:1 
47:19,22,23 
49:30 
50:13 
Exodus 15:16 
21:2 
Leviticus 22:11 
25: 15,28,30,44,45,50 
27:24 
Deuteronomy 28:68 
32:6 
Joshua 24:32 
Ruth 4:4,5,9,10 
2 Samuel 12:3 
24:24 
1 Kings 16:24 
2 Kings 22:6 
1 Chron. 21:24 
Nehemiah 5:16 
Proverbs 20:14 
Ecclesiastes 2:7 
Isaiah 24:2 
43:24 
Jeremiah 13:2,4 
32:7,8,9,,15,25,43,44 
Ezekiel 7:12 
Zechariah 11:5 
13:5

The following places render “qanah” as obtain, gained, get or gotten.

Gen 4:1 (acquired, NJB) 
Psalms 74:2 
78:54 
Proverbs 1:5 (acquire, NJB) 
4:5,7 (acquire, NJB) 
15:32 
16:16 
17:16 (buy, NJB) 
18:5, 22 
23:23 (purchase, NJB) 
Isaiah 11:11 
It is rendered as “cause” (making, Young's Literal) at Ezekiel 8:3 
It is rendered “redeemed”(bought, NIV) at Nehemiah 5:8 
It is rendered “possessed’ or “possessor” at: 
Genesis 14:19, 22 and Psalm 139:13 
As we can seen “qanah” always indicates something that was not previously possessed. 
C.F. Burney, in his article, stated:

"[T]he verb kana [Burney's spelling] always seems to possess the sense ‘get, acquire’, never the sense ‘possess, own’ simply, apart from the idea of  possessing  something which has been acquired in one way or another.  This  clearly appears  from  examination  of  the usages of the verb in Hebrew, and through comparison of the cognate languages.…To this  evidence for the Hebrew usage of the verb hnq it is important for our purpose to add the proper name Elkana, which can hardly mean anything else than ‘(He whom) God has begotten or created’….Whether kana here has the sense ‘beget’ or ‘create’ is ambiguous….In face of this evidence we must surely conclude that the ground-meaning of kana is that of acquiring something not  previously  possessed, which may be done by buying or making it, in the case of a child by begetting it, in the case of wisdom by accumulating it through mental application. (emphasis added)."
Surely, to contend that Almighty God had to acquire wisdom by mental application, is at variance with the data given to us about Him in His Word. 
The Hebrew qanah as created can be viewed in passages like the following: 
Genesis 4:1: “And the man knew Eve his wife; and she conceived, and bare Cain, and said, “I have gotten [qanah] a man with the help of Jehovah.”—ASV. 
Genesis 14:19: “[A]nd he [Melchizedek] blessed Abram, saying, “Blessed be Abram by God Most High, Creator [qanah, margin, “or, Possessor”] of heaven and earth.”—NIV. 
Genesis 14:22: “But Abram said to the king of Sodom, ‘I have raised my hand to the LORD God Most High, Creator [qanah] of heaven and earth.”—NIV. 
Deuteronomy 32:6: “[I]s this the way you repay the LORD foolish and unwise people? Is he not your Father, your Creator [qanah, “he-created you”—The NIV Interlinear Hebrew-English Old Testament, John R. Kohlenberger III] who made and formed —NIV.
JPH: Ecclesiasticus 1:1-4 All wisdom cometh from the Lord, and is with him for ever. The sand of the sea, and the drops of the rain, And the days of eternity who shall number? The height of the heaven and the breadth of the earth And the deep and wisdom, who shall search them out? Wisdom hath been created before all things, And the understanding of prudence from everlasting. 
The book of Ecclesiasticus was written by Jesus the son of Sirach in about 100 B.C. It describes Wisdom as having been "created before all things," as being "from everlasting" and as comparable to "the days of eternity." In this we are in harmony with the Trinitarian view of Jesus as created or generated by the Father eternally, that is, finding his source in the Father and having no existence apart from Him, yet also having existed eternally as God does.
Reply: There are several problems with the above. One, Wisdom is not said to be "from everlasting," in Ecclesiasticus, that statement was reserved for Prudence. This is also something we see in the Pseudepigrapha. In a note on the Hellenistic Synagogal Prayers, Edited by James H. Charlesworth, he states,
"Special attention is given to Wisdom (sophia). Wisdom is personified and represented as the instrument of creation (3:19; 4:7, 38; 12:36). Wisdom is not eternal, however, since God is her father (4:38) and creator (5:3)."
The Prayers cross-reference Prov 8:22. 
Two, even if it was, AIWN(ios)(a)(ion) here does not always mean "everlasting." It actually means "age," or "a long time." 
This is can be borne out by considering how other versions treat this. The Revised English Bible has at verse 4, "Wisdom was first of all created things, intelligent purpose has existed from the beginning." The New Jerusalem Bible has, "Wisdom was created before everything, prudent understanding from remotest ages." 
JPH is echoing the same sentiment as Robert Bowman in his Why You Should Believe in the Trinity, p. 61:
"Thus [Proverbs] 8:23 says, 'From everlasting I was established...' (NASB); the phrase from everlasting is the same phrase used of God in Psalm 90:2, where the JW's recognize that God is being described as having no beginning."
The problem here is that God is Creator in regards to everlasting [olam] (Isaiah 40:28). 
Everlasting/olam is used twice at Ps 90:2, whereas, elsewhere it is used only once for created beings. It is used of the forefathers (Joshua 24:2) and the prophets (Jer 28:8). The NASB tells us how the olam here should be used, if Bowman would only have completed the verse: 
"From the beginning, from the earliest times of the earth." NASB 
Other versions of Proverbs 8:23 bear out the limitations in regards to olam where created beings are concerned: 
"From of old" New American Bible 
"I was formed in earliest times." Revised English Bible 
"Ages ago" NRSV 
"I was made in the very beginning." TEV 
"In times long past" NEB etc 
Three, it is an oxymoron to say something is created, but has existed from all time. We have no Biblical parallel to compare this phenomenal contradiction with.
Also ignored is the connection with Wisdom/Sophia and the connection with angels. 
Former Priest and author, Tom Harpur writes that Jewish wisdom literature at the time of Christ spoke of the descent and ascent of Wisdom:

"..it is possible to say that the hypostasized Wisdom of late Jewish writing 'is an anonymous heavenly redeemer figure' very similar to those in both Greco-Roman and Christian thought. At the same time, Jewish theologizing about angels also made use of the descending and ascending pattern for figures of redemption. In Isaiah 63 it was the 'angel of [God's] presence' who 'saved' the Israelites-and 'in his love and pity...redeemed them.' Dozens of similar instances can be found throughout the Old Testament. Talbert also cites numerous instances in extra-Biblical writings in which archangels descend in human form. Some of the language used of these angelic redeemers is actually paralleled in the fourth Gospel: in the Testament of Abraham, for example, the archangel comes down and tells the patriarch 'everything which he has heard from the Most High,' while in another work an archangel, the 'firstborn of every creature,' descends to earth and 'tabernacles' among men. In all these writings there is the taking of bodily form, the successful struggle with evil, and the final ascent of the heavenly being. Moreover, in some cases the angel and Wisdom traditions merge with each other and with the concepts of the Logos  and the first-born son...the themes of pre-existence, descent and glorious ascent are found in Philippians 2:6-10, and those of descent and exaltation in Romans 1:3-4, while in Galatians 4:4 there is a clear reference to Christ as an angel: 'You have received me as an angel of God, even as Christ Jesus.'In teaching about Christ as pre-existent, 'the image of the invisible God, the first-born of every creature [by whom] all things were created' (Col. 1:15), clearly Paul is describing not the historical Jesus whose profile we can discern, however dimly, in the Gospels, but with a figure cast in the Wisdom literature speculation-that is, with a mythological construct."
For Christ's Sake, pp. 108, 109 
The mythological construct is in accord with JPH's acknowledgement that cultures also had their Wisdom traditions, and the Jews have borrowed this language (as they have with the words hades and tartarus) and made it their own. 
The Dictionary of Demons and Deities states, under Wisdom:
"Philosophers such as the author of the Book of Wisdom took great care not to lose the mythological connection which made for good literature, and also attracted those who adopted a view of the divine world which retained its plurality while placing Israel's God at the top. Christians were no doubt indebted to a two-deity system which reckoned with a major god with whom a minor, mediating deity was associated. The minor deity could be identified as Yahweh (with El Elyon  being the high god; Deut 32:8, 9 with note in BHS), as the Son of Man (Dan 7:13, 14) or as the archangel Michael (Dan 12:1). The old mythological tradition and the two-deity system helped early Christians in their attempt to define the nature and function of Christ."
Even the suggestion that Wisdom is merely God's attribute does not provide a means of escape. 
Scholar Frances Young observes in talking of Wisdom,
"Interestingly enough, some of the names of those concretely envisaged beings, the archangels, suggest the personification of divine attributes; Gabriel - might of God, Phanuel - face of God."
From Two Roots or a Tangled Mass-The Myth of God Incarnate 
In a review of *Angelomorphic Christology: Antecedents and Early Evidence*, by Gieschen, the following comments are made:
"Gieschen's conclusions are (1) that angelomorphic traditions "were profoundly employed in earliest extant expressions of Christology," (2) that Angel of the Lord traditions in particular were very important in contributing to the linking of angelomorphic figures intimately identified with YHWH (i.e., the Angel, the Glory, the Name, the Word, Wisdom) to the fleshly Jesus who had ascended and was now enthroned," (3) that early Christians combined various antecedent traditions in formulating their Christology, and (4) that traditions about the invisibility of God were important contributors to the development of angelomorphic traditions and to early Christology. Overall, Gieschen contends that angelomorphic traditions "were some of the oldest and most significant traditions that inspired the Christology which we now find in early Christian literature, including the New Testament." Indeed, Gieschen holds that "the central root" from which various early christological traditions developed (e.g., Wisdom/Spirit/Name/Glory/Son of Man/Image/Anthropos Christologies) is "the angelomorphic tradition in which the Angel of the Lord is God appearing in the form of a man."" 
http://www.bookreviews.org/Reviews/9004108408.html
Metzger makes an interesting point:
"The dividing line between Wisdom the woman and God can grow hazy. Without the introductory verses to Proverbs 1:22-33 one might easily assume that the speaker is not Wisdom but God! Theologians have observed that Wisdom functions as a mediator between God and humanity...Wisdom's mediating role may have answered a spiritual need earlier fulfilled by the king (see Ps. 72:1; 1 Kings 8:22-53)." Oxford Companion to the Bible, (under Wisdom)
That Wisdom often looks indistinguishable from God is also echoed in other works that find it hard to tell between God's angel and God Himself. But the language of this use of agency is quite common. 
A.R. Johnson in a monograph entitled The One and the Many in the Israelite Conception of God, states the following regarding this form of speech: 
"In Hebrew thought a patriarch’s personality extended through his entire household to his wives, his sons and their wives, his daughters, servants in his household and even in some sense his property. The "one" personality was present in the "many" who were with him. In a specialized sense when the patriarch’s as lord of his household deputized his trusted servant as his malak (i.e. his messenger or angel) the man was endowed with the authority and resources of his lord to represent him fully and transact business in his name. In Semitic thought this messenger-representative was conceived of as being personally-and in his very words-the presence of the sender" (Christology and The Angel of the LORD by John Cunningham). 
Consider the following few examples: 
An angel spoke out of the bush, yet it was God speaking through the angel. In this same event, God gave Moses the law and specifically the Ten Commandments. It says in Exodus 20:1-17:
"I am Jehovah thy God, who brought thee out of the land of Egypt, out of the house of bondage. Thou shalt have no other gods before me." ASV

But,  it was actually God speaking through the angel. Stephen again verifies this in Acts 7:53:

"You received the law as transmitted by angels, but you did not observe it." NAB

The law was given to Moses through the angels. As a matter of fact, the whole episode on Mount Sanai was God speaking through the angels. Act 7:38 states:

"This is he that was in the church in the wilderness with the angel that spake to him in the Mount Sinai, and with our fathers: who received living oracles to give unto us." ASV

In  Deuteronomy 29:1-6 we have Moses is speaking to Israel, but then, he is speaking in the first person as God.

"These are the words of the covenant which Jehovah commanded Moses to make with the children of Israel in the land of Moab, besides the covenant which he made with them in Horeb. And Moses called unto all Israel, and said unto them, Ye have seen all that Jehovah did before your eyes in the land of Egypt unto Pharaoh, and unto all his servants, and unto all his land; the great trials which thine eyes saw, the signs, and those great wonders: but Jehovah hath not given you a heart to know, and eyes to see, and ears to hear, unto this day. And I have led you forty years in the wilderness: your clothes are not waxed old upon you, and thy shoe is not waxed old upon thy foot. Ye have not eaten bread, neither have ye drunk wine or strong drink; that ye may know that I am Jehovah your God."
These verses start off with Moses speaking as himself and ends with Moses speaking as God in the first person. But it is God speaking through Moses to Israel. There are many examples in the Bible of this custom of speech.
"The main point of the Jewish law of agency is expressed in the dictum, "A person's agent is regarded as the person himself." Therefore any act committed by a duly appointed agent is regarded as having been committed by the principle." The Encyclopedia of the Jewish Religion, R.J.Z. Werblowski and Geoffrey Wigoder
The idea is that God gives His authority to His representatives. This idea is pivotal in the understanding of Jesus because Jesus will be God’s representative par excellence, and Jesus will speak on behalf of God. To illustrate the point of God giving His authority to His representatives, take note of the following:
"Behold, I send an angel before thee, to keep thee by the way, and to bring thee into the place which I have prepared. Take ye heed before him, and hearken unto his voice; provoke him not; for he will not pardon your transgression: for my name is in him. ["He is my representative" NLT; "My power is around him" Fenton; "My authority rests in him" REB; "I am giving him complete authority" CEV] 
But if thou shalt indeed hearken unto his voice, and do all that I speak; then I will be an enemy unto thine enemies, and an adversary unto thine adversaries." (Exodus 23:20-22 ASV).
YHWH’s authority resides in this angel. The angel is God’s representative and thus has the authority of God, but the angel is not God. If we apply this concept to our understanding of Jesus, then this will provide some clarification. Jesus represents God on earth and will thus speak for God and have His authority to forgive sins and to judge.
"For I spake not from myself; but the Father that sent me, he hath given me a commandment, what I should say, and what I should speak." (John 12:49).

"and he gave him authority to execute judgment, because he is a son of man." (John 5:27).

"And Jesus came to them and spake unto them, saying, All authority hath been given unto me in heaven and on earth." (Matthew 28:18)

"Now is come the salvation, and the power, and the kingdom of our God, and the authority of his Christ" (Revelation 12:10).

" But that ye may know that the Son of man hath authority on earth to forgive sins...when the multitudes saw it, they were afraid, and glorified God, who had given such authority unto men."(Matthew 9:6-8).

Jesus is representing God to the people. He is speaking on behalf of God. He is God's Word. 
This is not a new concept, Moses said exactly this about the future Messiah in Deuteronomy 18:18:

"I will raise them up a prophet from among their brethren, like unto thee; and I will put my words in his mouth, and he shall speak unto them all that I shall command him."
He is God's word, like others were before him. Under "word" in the Harper Collins Bible Dictionary:
"Prophets hear and speak what the Lord has spoken to them (Isa. 1:2; 6:8-10), for they are primarily recipients and transmitters of the word of the Lord (Jer. 1:2). The NT...usage can be seen as a development of the OT.
Under Word in McKenzie's Bible Dictionary:
"The word of God in the OT refers most frequently to the word of the prophet."
Interestingly, Metzger's comments above make mention of 1 Kings 8, which states,
"But will God in very deed dwell on the earth? behold, heaven and the heaven of heavens cannot contain thee; how much less this house that I have builded!" ASV
Jehovah far transcends containment by anything he has created. The destructive power that results from gazing at God (Ex 33:20) is echoed at 3 Enoch 3 22B:5, 6:
"What does YHWH, the God of Israel, the glorious king, do? The great God, mighty in power, covers his face...otherwise the heaven of Arabot would burst open in the middle, because of the glorious brilliance, beautiful brightness, lovely splendor, and radiant praises of the appearance of the Holy One, blessed be he."
We cannot see God, and as a loving result, he is invisible to us. (1 Tim 1:17; John 1:18; Col 1:15) 
So he sends a lesser Jehovah, Jesus Christ, whom we can see, just as he has sent his angels in the past. 
When we again, through the view of angelic agency, consider the Wisdom literature and the Pseudepigrapha, we are given an insight long ignored:
Wisdom 10:18 "She brought them over the Red Sea, and led them through deep waters" RSV
Compare:
Exodus 14:19 "Then the angel of God who went before the host of Israel moved and went behind them; and the pillar of cloud moved from before them and stood behind them." See also Num 20:16 RSV 
Ex 23:20,21 "Behold, I send an angel before you, to guard you on the way and to bring you to the place which I have prepared. Give heed to him and hearken to his voice, do not rebel against him, for he will not pardon your transgression; for my name is in him. [Compare 3 Enoch 12:5]
Wisdom 10:19 "but she [Wisdom] drowned their enemies,and cast them up from the depth of the sea." 
Compare: 
Rev 7:1 "After this I saw four angels standing at the four corners of the earth, holding back the four winds of the earth, that no wind might blow on earth or sea or against any tree."
Wisdom 10:13 "When a righteous man was sold, wisdom did not desert him, but delivered him from sin. She descended with him into the dungeon."
Compare:
Daniel 3:25 "He answered, "But I see four men loose, walking in the midst of the fire, and they are not hurt; and the appearance of the fourth is like a son of the gods...Nebuchadnez'zar said, 'Blessed be the God of Shadrach, Meshach, and Abed'nego, who has sent his angel and delivered his servants, who trusted in him, and set at nought the king's command, and yielded up their bodies rather than serve and worship any god except their own God.'" 
Dan 6:22 "Then Daniel said to the king, 'O king, live for ever! My God sent his angel and shut the lions' mouths, and they have not hurt me, because I was found blameless before him; and also before you, O king, I have done no wrong.'"
“Then wisdom went out to dwell with the children of the people, but she found no dwelling-place. So wisdom returned to her place and she settled permanently among the angels.” 1 Enoch 42:1, 2
Compare:

"So the Logos (Word) became flesh and dwelt among us." (John 1:14)

Even when discussing Philo, many have realized that his writings on Wisdom/Logos can be best understood with an angelology in view. 
In her "Logos and Its Function in the Writings of Philo of Alexandria: Greek Interpretation of Hebrew Thought and Foundations of Christianity: Part One," Marian Hillar writes:

"The Angel of the Lord, Revealer of God: 
Philo describes the Logos as the revealer of God symbolized in the Scripture (Gen. 31:13; 16:8; etc) by an angel of the Lord (Somn. 1.228-239; Cher. 1-3). The Logos is the first-born and the eldest and chief of the angels. 
Intermediary Power: 
The fundamental doctrine propounded by Philo is that of Logos as an intermediary power, a messenger and mediator between God and the world. 
And the father who created the universe has given to his archangel and most ancient Logos a pre-eminent gift, to stand on the confines of both, and separate that which had been created from the Creator. And this same Logos is continually a suppliant to the immortal God on behalf of the mortal race, which is exposed to affliction and misery; and is also the ambassador, sent by the Ruler of all, to the subject race. And the Logos rejoices.... saying "And I stood in the midst, between the Lord and you" (Num. 16:48); neither being uncreated as God, nor yet created as you, but being in the midst between these two extremities, like a hostage, as it were, to both parties (Her. 205-206)."
From the Newman Reader — Works of John Henry Newman:
"Philo, as far as I know, ascribed no 'condescension' to his Logos, for he considered him a creature, or, at least, an emanation, as well as his companion Angel. He speaks of him as a second God (vid. Euseb. Præp. Ev. vii. 13, p. 323, ed. 1688); as an Archangel between God and man, neither increate nor a creature, an intercessor with God, a messenger from Him (Quis hæres, p. 509), as the first-born Son, His Viceroy (de Agricult. p. 195), the created idea or plan, the [kosmos noetos] on which the visible world was made (de Opif. mund. p. 5, Quis hæres, p. 512). There is nothing then in him which needs explanation when he speaks of the Almighty and His two ministering attendants; but if a writer such as Irenæus uses language of a like character, he must be interpreted, not by Philo, but by other statements of his own and by the doctrine of his brother theologians. Indeed, when closely inspected, the doubtful language of this great Father explains itself." 
http://www.newmanreader.org/works/tracts/arianism/section10.html
From A Dictionary of Angels, by Gustav Davidson:
"In Enoch II, 33, wisdom is hypostasized. God orders wisdom, on the 6th day of Creation, 'to make man of seven substances.' In Reider, The Book Of Wisdom, wisdom is the 'assessor on God's throne,' the instrument or divine agent (i.e. angel) 'by which all things were created.' [Cf. the Logos of Philo.] According to the Catholic Encyclopedia, 'Angel,' the term 'angel of the Lord' finds a 'counterpart in the personification of wisdom in the Sapiential books, and in at least one passage (Zachariah 3:1) it seems to stand for that Son of Man whom Daniel (Daniel 7:13) saw brought before the Ancient of Days." p. 312,
The belief that Michael the Archangel was the same as the Word/Wisdom, was carried over by Philo of Judea who, ‘identified the Logos with the archangel Michael.’ (Formation of Christian Dogma, Professor Martin Werner, page 133)
"The counterpart of this is afforded by an identification of Christ with the archangel Michael, an identification which is made in the Shepherd of Hermas. ... According to the early Christian writing Of The Threefold Fruits, Christ, as one of the seven archangels of God, was created ‘from fire’ and exalted to the status of ‘Son.’" (Formation of Christian Dogma, 
Professor Martin Werner, page 135)

FIRST OXFORD LECTURE ON THE DEVELOPMENT OF CHRISTOLOGY 
by Crispin H. T. Fletcher-Louis:

"1. Most discussion of the LOGOS has, understandably focused on Philo. I don't want to get embroiled in the highly sophisticated world of Philo, except to say that there is a steadily increasing body of opinion that, in actual fact his ideas are very Jewish in origin if not in expression. His use of LOGOS/LOGOI language is best understood as an adaptation to a Hellenistic idiom of the peculiarly Jewish language of angels. 
Long before Philo, Greek speaking Jews had used Logos language as an alternative to Angel of LORD. As Jarl Fossum has pointed out, a key passage in this respect in Ezekiel the Tragedian's Exagoge 96-99. In this passage Moses' encounter with the burning bush is retold and where the biblical account (Exodus 3) has the Angel of the LORD in the bush, Ezekiel has a divine Logos. Logos language, then, is Angel of the Lord language, (cf. also Wisdom of Solomon 18:15f, reworking 1Chron 21:16. 
2. Similarly, though Wisdom has had her own independent history within Israelite culture, she has already been identified with the Angel of the LORD long before early Christianity. This is clear from Sirach 24:4 where Wisdom takes up the position of the Angel of the LORD in the cloud of Exodus 14:19 and Wisdom of Solomon 9:1-2, 18:15-16 where Wisdom, Logos and Angel of the Lord are equated. 
Wisdom and Logos, then, both point to the importance of angelic categories as the common denominator in Jewish mediatorial speculation."
"In the 19th century the Berlin Old Testament student, who was also editor of a church newspaper and an ecclesiastical politician, Ernest Wilhelm Hengstenberg, in his many-volumed work on the Christology of the Old Testament, concentrated upon the Early Christian identification of Christ with the angelic figures of the Old Testament, particularly the archangel Michael." (Formation of Christian Dogma, Professor Martin Werner, page 137)
"In the Primitive Christian era there was no sign of any kind of Trinitarian problem or controversy, such as later produced violent conflicts in the Church. The reason for this undoubtedly lay in the fact that, for Primitive Christianity, Christ was . . . a being of the high celestial angel-world, who was created and chosen by God for the task of bringing in, at the end of the ages, . . . the Kingdom of God." The Formation of Christian Dogma, pages 122, 125. "Finally, we bring back for our readers a brief note on Col. 1:15.

JPH concludes:

Our friend "Heinz" declared to a reader that Col. 1:15 was in a partitive genitive which made Christ the "firstborn" of creation out to be a part of that creation. This would in no sense eliminate an idea of Christ as an eternal creation of the Father, but even so, as Helyer points out ("Arius Revisited," JETS Mar. 1998)there are actually four possible interpretations of the genitive here: 1) partitive (preferred by the Arians and the JWs); 2)comparitive (which would exclude Christ from the creation; 3) place (defines the sphere of Christ's rule over creation) or 4) objective (relates to the action of the "firstborn" upon the creation). Helyer notes that option 1) is excluded by virtue of a) the hoti clause of v. 16 and the pro panta of v. 17, which clearly exclude Christ from the realm of created things; b) the language of eikon in v. 15 and pleroma in v. 19, which includes Christ in the full deity; c) the parallels to the Wisdom tradition, in which Wisdom is not a creation as the rest of creation, but is eternally begotten; d) that the partitive would emphasize the -tokos aspect of prototokos (firstborn), something paralleled in the NT only in Luke 2:7. Helyer therefore opts for the objective genitive as the intent of the passage."
Reply: Does the "hoti clause of v. 16 and the pro panta of v. 17" "clearly exclude Christ from the realm of created things"? 
The clause at verse 16 says, hOTI EN AUTWi EKTISQH TA PANTA, which Barclay's NT renders, "For he is the agent by whom all things were created." 
The 21st Century NT has "It was he that formed all other things in heaven...all came into existence as a result of him and by means of him." 
The reason the above Bibles have a different view of this is because Helyer has ignored the passivity of the verbs involved. 
The verb EKTISQH ("were created") is passive, hence the subject and object are reversed from the active voice. The "him" of AUTWi cannot be the subject because it is part of an adverbial phrase headed by the preposition EN ["by means of']. Thus, the TA PANTA ["all things"] was created by an unnamed EN, the PRWTOTOKOS. Who created all things EN ["by means of"] Christ? 
In verses 12 and 13 the Father is the subject, and in v. 13, it is the Father who has delivered us. In v. 14, the Father is still the subject while the Son is the intermediate agent identified by the EN clause (EN hWi). Verse 15 concentrates on the indirect agent of v. 14, that the indirect agent is EIKWN ["image"] and PRWTOTOKOS ["firstborn"], and in verse 16, the Son is indirect agent again because of the EN AUTWi ["for he is the agent by whom" Barclay]. 
stop 
The conclusion is that the Father is creator and he creates "EN", or "by means of" the Son. Passive verbs and prepositions are used in those verses also in Hebrews 1:2 and John 1:3, and describe Jesus as an intermediate agent. 
The concept of *time* is prominent in Col 1:15 - 18 with temporal words like PRWTOTOKOS ( a temporal word), ARXH (v. 18) and that he is PRO (before) TA PANTA (v.17). It was the Father's purpose (v.18) that the Son be prominent (PRWTEUWN) in all things because of being temporally first, as Paul's use of language shows. 
Also ignored is the use of EK, or lack of, in regards to Jesus.
E. Lohse, "A Commentary on the Epistles to the Colossians and to Philemon", (The Hermeneia Series) p. 50, note 125 says: "It should be noted that EN (in), DIA (through), and EIS (for) are used, but not EK (from). 'From whom are all things' ( EX hOU TA PANTA) is said of God in 1 Corinthians 8:6. He is and remains the creator, but the pre-existent Christ is the mediator of creation."

The Son is never called "creator", but he is what Robertson calls "the intermediate agent" According to Robertson (Grammar p. 820) the source (direct agent) is most commonly expressed by the Greek preposition hUPO ("by"), and sometimes by APO ("from") and EK ("out of"). The intermediate agent is often identified by DIA ("through"). Matthew 1:22 points this out nicely: "All this took place because what was spoken [aorist passive participle] by [ hUPO] the Lord through [DIA] the prophet must be fulfilled [aorist passive subjunctive]." Here "the Lord" is the source and "the prophet" is the intermediate agent. In John 1:3 we read " Through (DIA) him all things were made." In Colossians 1:16 we read: "For by (EN) him all things were created: things in heaven and on earth, visible and invisible, whether thrones or powers or rulers or authorities; all things were created by (DIA) him and for (EIS) him. " Please note that the verbs are passive and note the use of prepositions. In the verse we find the preposition EN ("in," "by means of"). This preposition governs AUTW ("him," in the dative case). Most of the 74 occurrences in the NT of EN AUTWi in the dative case are locative, that is, they refer to something or someone being in some place. Only one of the examples points to a source. In the last part of verse 16 we find the preposition DIA which governs AUTOU in the genitive case. This is the typical marking of an intermediate agent, so this must be the proper way to view the Son in this context. God is the source of the passive verbs which speak about creation, and that the Son is the intermediate agent? In Colossians 1:12 "the Father" is mentioned, and he is active through verse 20. This is seen in verse 19 where God is the implied subject for the verb, and it is particularly evident in verse 20, because here both the source (God) and the intermediate agent (Jesus) are mentioned. It is said that the reconciliation is "through" (DIA) Jesus and "to" (EIS) God. The same thought is expressed in verse 22. The implied source (grammatical subject) of the active verb "reconciled" is "God." The intermediate agent is Jesus, for it is said that reconciliation occurred "by means of" (EN) his fleshly body and "through" (DIA) his death.

Even Robert H Countess, though no friend of the NWT, had the following interesting remarks:

"Even though Liddell-Scott state that the radical sense of DIA is 'through' there can be produced  instances where the genitive appears to be causal and the accusative to signify agency. In general this writer would observe that the so-called causal uses of DIA seem to be inextricably linked  with agency (i.e. 'by' or 'through'). 
For example, one lexicon cites as causal John 1:3-DI AUTOU EGENETO. [cf. Col. 1:16-TA PANTA DI AUTOU KAI EIS AUTON EKTISTAI.] God apparently worked *through* the Son in creating all things and, therefore, the Son Himself in some sense *caused* or created. Another example given is Acts 3:18- O DE QEOS A PROKATHGGEILEN DIA STOMATOS PANTWN TWN PROFHTWN. Here the mouth of all the prophets is the channel or medium *through which* God announced beforehand the sufferings of Christ. The prophets indeed *caused* the message to be proclaimed but only inasmuch as their mouths had been selected as channels or media for the divine communication." THANK GOD FOR THE GENITIVE, Robert H. Countess, p. 118, JETS, Spring 1969
It is interesting that even Countess has to concede that Christ is the agent of creation, and, as a parallel, uses Acts 3:18, denoting a separate body/being as agent. 
All of this works well with Proverbs 8:22-30, where we have the created angel Wisdom/Jesus, helping his creator in the creation of the earth, standing beside him as a "master workman." 
------------------------------------------------------------------------------------------------------------------------------- 
*Ftn. 1: "The personal commitment and pattern of life of contemporary religious groups orthodox Christianity calls deeply heretical, such as Mormonism and the Jehovah's Witnesses, frequently shame the orthodox churches. The missionary zeal of both Mormons and Witnesses, for example, is precisely what one ought to be able to expect from orthodox Christians of they really believe in the truth of the doctrines to which their credal and confessional positions formally commit them."
*Ftn. 2 Being that it is such a brief book, it cannot anticipate nor deal with all the evidence thoroughly. 
As one reviewer puts it: 
"For example, given Bauckham's thesis, how does divine identity explain the subordination of the Son to the Father, a notion found throughout the New Testament? Also, how does divine identity account for the counter or ambiguous evidence? In particular, Bauckham admits the exaltation of the Son of Man in 1 Enoch runs counter to the way Jews distinguished God from all other created beings. Perhaps more problematic is the mysterious and allusive Angel of the Lord, a figure with whom Bauckham does not deal. Another question needing some clarification has to do with the reasons early Christians included Jesus within the unique identity of Israel's God. Obviously, creative scriptural exegesis played an important role in how these early theologians envisaged Jesus and expressed their faith. But what caused them to read the texts in such a way? Finally, Bauckham writes that the inclusion of Jesus within the identity of God was radically novel and "almost unprecedented in Jewish theology" (p. 4). Yet it remains unclear what Bauckham thinks the precedents are or the reason why there had to be precedents at all."

The new atheism is simply a new extremism?Pros and cons.

One more time:artificial selection =natural selection.

How the 2018 Nobel Laureates in Chemistry Harnessed Intelligent Design

I am an enzyme bioengineer, so I greeted with enthusiasm Wednesday’s announcement, noted here already by Doug Axe,that part of the 2018 Nobel Prize in Chemistry went to a fellow enzyme bioengineer. She is Frances H. Arnold,a professor of chemical engineering at Caltech. 

Her accomplishments in the field are impressive, as is the work of her co-winners, whose work also involves bioengineering. The three are indeed deserving recipients. 

There is one point of confusion in descriptions of this year’s prize winners. It’s the talk of “directed evolution.” The Nobel Prize organization itself has encouraged such talk. The official announcement is titled “They harnessed the power of evolution.” It continues:

The 2018 Nobel Laureates in Chemistry have taken control of evolution and used it for purposes that bring the greatest benefit to humankind. Enzymes produced through directed evolution are used to manufacture everything from biofuels to pharmaceuticals.

The New York Times goes on in the same vein:

At first, Dr. Arnold attempted “rational design,” employing logic and knowledge of how proteins function to try to build new enzymes — proteins that act as catalysts for chemical reactions. But enzymes are large, complicated molecules — some consisting of thousands of amino acids — and it is hard to figure out how a shift in one twist of the molecule affects how it works.

In desperation, she said, she turned to evolution.

“I copied nature’s inventions, this wonderful process of evolution, to breed molecules like you breed cats and dogs,” she said.

For this “directed evolution” research, she inserted the gene that produced the enzyme she wanted to study into fast-reproducing bacteria. With mutations of the gene, she could then examine how well variations of the enzyme worked. She chose the one that worked best and repeated the process — just like evolution chooses the survival of the fittest over succeeding generations.

Conflating Artificial and Natural Selection 

What’s the problem? First there’s the conflation of artificial and natural selection. More fundamentally, the term “directed evolution” is a contradictio in adjecto, in the same way the term “wooden iron” is. It obscures the reality that the new enzymes were engineered via intelligent design. We’re called bioengineers for a reason, after all.

The role of the term “directed evolution” is contrasted with “rational design.” This second phrase is also a contradictio in adjecto. The placing of the adjective “rational” in front of “design” implies that design can be wholly non-rational, wholly separate from the work of creative intelligence, of mind. But that is contradictory to all generally accepted definitions of design.

The following excerpt from my essay in the recent anthology Theistic Evolution: A Scientific, Philosophical, and Theological Critique describes the random and designed aspects of the so-called “directed evolution” approach to bioengineering:

Enzymes are widely used for many different applications: in washing powders, food manufacturing, textile industry, animal feed, and chemical production etc. Unfortunately natural enzymes are not always suitable for industrial conditions where high temperatures, extremes of pH and variety of other chemicals interfere with enzymatic reactions. Using the tools of genetic engineering it is possible to modify existing enzymes with various methods. One approach is to randomly mutate the gene coding for a given enzyme. The process is called directed evolution (which is an oxymoron since it connects two opposing terms together). One then seeks to find better functioning mutants among the variants so created. Some amazing results have been achieved with this technique1:

Enzyme activity has been improved.
Thermal and pH stability has increased.
Specificity has changed.
Side activities have improved.
Stability against solvents and oxidants has improved.
In spite of these achievements, the technique has its limitations:

There must be a mutational pathway to the new structure.
One must be able to create a large enough mutant library in order to find the rare positive mutants.
One must have a rapid screening method to detect the rare positive mutants.

Hallmarks of Intelligent Design

In his book The Edge of Evolution biochemist Michael Behe draws upon research on E. coli, malaria, and HIV mutations. From this he calculates the upper limit for a random mutational process in nature at two to three simultaneous mutations in one protein. This is in harmony with Barry Hall’s results with lactase mutations.2 

Bioengineers, including the 2018 Nobel laureates in Chemistry, are demonstrating a way beyond this limit — intelligent design. These brilliantly designed experiments involve mutation rates artificially engineered to occur at 10,000 to a million times the rate typical in nature, carefully selected reaction conditions, the intelligently selected use of genetic engineering tools (tools that are themselves intelligently designed), and the mindful selection of variants towards a desired goal. 

All of these are hallmarks of intelligent design.

For more on the promising field of enzyme engineering, how it demonstrates the limits of natural evolutionary processes and the reach of intelligent design, see Chapter 10 of my recently co-authored book  Heretic: One Scientist’s Journey from Darwin to Design.

Matti Leisola, DSc, is a bioengineer and former dean of Chemistry and Material Sciences at Helsinki University of Technology. An expert in enzymes and rare sugars, he has published 140 peer-reviewed articles and won the Latsis Prize-ETH Zürich. He also served as biotech research director for Cultor, an international biotech company, co-founded the International Society of Rare Sugars, and was the founding editor of BIO-Complexity.

Notes:

Matti Leisola, and Ossi Turunen, “Protein Engineering: Opportunities and Challenges,” Applied Microbiology and Biotechnology 75 (2007): 1225-1232, doi:10.1007/s00253-007-0964-2.

Barry Hall, “The EBG System of E. coli: Origin and Evolution of a Novel Beta-Galactosidase for the Metabolism of Lactose,” Genetica 118 (2003): 143-156.

Water is becoming the new oil.

THE WORLD WILL SOON BE AT WAR OVER WATER
BY JAMES FERGUSSON 

The world is at war over water. Goldman Sachs describes it as “the petroleum of the next century”. Disputes over water tend to start small and local – for instance, with the sort of protests that drought-stricken São Paolo has experienced this year. But minor civil unrest can quickly mushroom, as the bonds of civilisation snap.It is often forgotten that the revolution against Syrian president Bashar al-Assad began this way, when youths of the southern Syrian town of Daraa, angry at the local governor’s corrupt allocation of scarce reservoir water, were caught spraying anti-establishment graffiti. Their arrest and torture was the final straw for the tribes from which the youths came. It was a very similar story in Yemen, whose revolution began in 2011 in Taiz, the most water-stressed city in that country.When we think of Syria now, we cannot see far past the threat posed by Islamists. But Isis, in the end, is a symptom of social malfunction. If order is to be restored, we might do better to start focusing instead on the causes. Then we could perhaps look harder for “soft power” solutions – the restoration of governance and basic services, such as electricity and water supply – rather than for hard power ones, such as missiles and bombs.
1. THE MESOPOTAMIAN WAR As Islamic State’s leaders work to carve out their glorious new state, they have comprehended that political power in Mesopotamia has always rested on the ability to supply its citizens with water. The prosperity of ancient Nimrud, the 7th-century BC ruins that Isis recently bulldozed because they were “unIslamic”, was founded on its irrigation dam across the Tigris. The Sumerian city-state of Ur – the first city, founded in 3800BC – was abandoned by 500BC following a protracted drought and the siltation of the Euphrates.Isis is headquartered at Raqqah, a mere 40km down the Euphrates from the largest reservoir in Syria, Lake Assad. Raqqah’s economy has long depended on the cultivation of cotton irrigated by the reservoir, which was formed by the Russian-assisted construction of the Tabqa dam in 1973, and designed to irrigate some 2,500 square miles of farmland.Last August, Isis fought fiercely for control of the largest dam in Iraq, across the Tigris at Mosul. Its fighters also took over two other dams across the Euphrates, one at Fallujah, the other at Haditha. In all cases, it took American air strikes to drive them off, and the high value the terrorist group places on Mesopotamia’s dams suggests that further offensives against such targets are likely.Even if Isis leaders in Raqqah succeed in holding one of these key pieces of hydro-infrastructure, however, they do not control the headwaters of either the Tigris or the Euphrates, which rise in Turkey. It is the Turks, who have squabbled for 40 years with their downstream neighbours over use of the rivers, who therefore hold the keys to the long-term future of Isis – and the Islamists know it.

2. TURKEY V ISIS Last summer, Isis accused the Turkish government in Ankara, headed by Recep Tayyip Erdogan, of deliberately holding back the Euphrates through a series of dams on its territory, lowering water levels in Lake Assad by a record six metres. Isis was apoplectic.“I pray to God that the apostate [Turkish] government reconsiders its decisions,” a spokesman Abu Mosa reportedly said, “because if they do not reconsider it now, we will reconsider it for them by liberating Istanbul.”Turkey’s dams have given Ankara a vital hold over Isis’s leaders, who, for the present, twitch like puppets on a string. Ankara, it should be said, may not have been wholly responsible for the shrinking of Lake Assad. Local farmers, emboldened by the collapse of governance in Syria, were reported last year to have siphoned off vast amounts of water to irrigate their own cotton plantations. Nature played a role too; there was less than half as much rainfall in the Turkish highlands in the wet season of 2014 as in the previous year.Nevertheless, Turkey’s stranglehold over its downstream neighbours is real – and it is set to tighten further in 2015, with the completion of the controversial Ilisu hydro-dam on the Tigris, which will create a 10 billion cubic metre reservoir just 30 miles north of the Syrian border. The dam is the latest of 22 envisioned under the Southeastern Anatolia Project (or GAP, to use its Turkish acronym), a vast regional development plan that was originally mooted by Kemal Ataturk in the 1930s.The father of modern Turkey could not have foreseen how completely his country’s “blue gold” would one day replace oil as the region’s most important resource. Iraq’s oil industry requires 1.8 billion cubic metres of water a year in order to function at all. Ankara has adopted a canny and forward foreign policy for years now, extending its influence everywhere from Somalia to Afghanistan. What is happening in Anatolia now suggests that “neo-Ottomanism” is not just political posturing: it really is the future for this part of the Middle East.Hydrologists in Sweden recently suggested that by 2040, the volume of water being extracted from the mighty Tigris and Euphrates – rivers that once delineated and sustained the cradle of civilisation – could be so great that they no longer reach the sea.Once the GAP is completed, about half of the water these rivers now carry may never leave Turkey at all. The prediction bodes very ill for the visionaries of Islamic State. Whatever else they may achieve, it is no 1,000-year Reich that they are building in Syria or Iraq.

3. THE YANGTZE PROBLEM There are dozens of potential dam-related flashpoints around the world. The Permanent Court of Arbitration in The Hague, which handles international water disputes, says 263 river basins are contested globally. There are already more than 40,000 large dams around the world. These icons of post-war Western development irrigate millions of square miles of farmland and produce a fifth of the world’s electricity through hydropower.An area the size of California – 0.3% of the world’s total land mass – has been lost to artificial reservoirs since the golden age of dam-building began in the 1950s. The number of major schemes tailed off in the 1990s, as environmental concerns grew and the economic efficiency of the largest projects was called into question. But booming demand has since dramatically revived the industry. New mega-dams are now among the largest and most expensive engineering projects on the planet.The costliest so far is China’s South-to-North Water Diversion Project, a scheme to divert the waters of the River Yangtze via dams, tunnels and three vast canals to the arid north of the country. The project is still only half finished, yet by last year had swallowed more than $79bn (€73bn). Hundreds of thousands of villagers have been forced from their homes by the project. The scheme’s long-term effect on the environment and economy of the south remains uncertain.Far to the south, meanwhile, on the River Mekong, Laos is copying China by building two major dams that could devastate not just the local economies but the lives of its downstream neighbours, Cambodia and Vietnam. The diet of some 50 million people is based on fish caught in the Mekong, which is already the most dammed river in the world.Then there is the Rogun hydro-dam on the Amu Darya in Tajikistan which, when completed, could be 355 metres high: the tallest dam in the world. The possible effect on the Amu Darya worries downstream Uzbekistan, which has responded with sanctions and travel restrictions on the Tajiks.
4. THE CONGO AND THE NILE The most productive hydro-power dam, the Grand Inga, has recently been proposed for the River Congo, 225km south-west of Kinshasa. With a projected price tag of £80bn (€74bn), developers claim it will “light up Africa”. Critics say that the electricity generated will mostly be transmitted to distant cities, and that the continent’s poorest will see little benefit. The cost overruns in this notoriously corrupt part of the world could also end up making the South-to-North China project look cheap.This month, Egypt and Ethiopia signed a treaty over the latter’s half-built Grand Renaissance dam on the Blue Nile, which will be the largest hydro-scheme in Africa when it comes on stream in 2017. Downstream Egypt, whose development has depended on the Nile since ancient times, originally objected so strongly that in June 2013 a meeting of the cabinet of the then president, Mohammad Morsi, was caught on live television discussing ways of destroying the dam, including via covert support for anti-government rebels. Sanity seems now to have prevailed.5. AFGHANISTAN DRIES UP Nato’s recently concluded engagement in southern Afghanistan is not normally cast as a water conflict, although that is largely what it was. Helmand, the most hotly-disputed province, was once one of Afghanistan’s breadbaskets thanks to the Helmand Valley Authority, an irrigation scheme set up in the 1950s by American engineers.But mismanagement of the scheme’s 300 miles of canals, coupled with a period of protracted drought, meant that the area of irrigated land halved between 1979 and 2002. Local tribes, spurred on by the vast profits to be made from the cultivation of poppies, fought over what remained, with the Taliban exploiting the conflict.One of the centrepieces of the HVA was the Kajaki hydro-dam, completed in 1953 by the same US firm that built the Hoover Dam on the River Colorado. The Americans returned in 2001, this time in order to bomb it.Policy changed again in 2006, however, when Nato realised how important the dam was to regional stability. In 2008, in what proved to be the largest set-piece Nato operation of the entire Afghan war, some 5,000 Nato troops fought for six days to deliver by road a new 200-ton turbine to the plant. Seven years on, the turbine, scandalously, has still not been assembled.6. INDIA V PAKISTAN The territorial dispute between India and Pakistan over Kashmir – both the highest and longest-running in the world – is largely about control of the headwaters of the River Indus, on which Pakistan’s agricultural economy downstream has become ever more dependent.There are 200 million people in Pakistan: double the number 30 years ago. Yet Dutch scientists think shrinking glaciers caused by climate change could reduce the Indus by 8% by 2050.India, which has built or proposed some 45 hydro-schemes on the Indus’s upper reaches, insists that flow will never be affected. But Pakistan is as paranoid about India as Isis is about Turkey, with a long track-record of blaming India for social ills at home.The rhetoric of extremists is already hot. Hafiz Saeed, a militant linked to the Mumbai hotel atrocity of 2008, has spoken in the past of India’s “water terrorism”, and campaigned under slogans like “Water flows, or blood”. Could diminishing water supply push these nuclear-armed neighbours towards a new war?


7. ISRAEL V PALESTINE Finally, there is Israel and Palestine, arguably the grand-daddy of all water conflicts. Israel, a state founded on Ben-Gurion’s dream of “making the desert bloom”, diverted the River Jordan half a century ago, east and southwards towards the Negev desert, via a canal called the National Water Carrier.The Dead Sea has lost a third of its surface area as a direct consequence, and the River Jordan of biblical antiquity has become a muddy trickle in a ditch. The reason Israel still occupies the Golan Heights, captured from Syria in the Six-Day War of 1967, is because that is where the Jordan rises.All this has come at the expense of the Palestinians, who accuse Israel of manipulating water supply to suppress them. Some 85% of all the water in the West Bank goes to Israel, according to some estimates. The Palestinian Water Authority says that Israelis consume seven times more water, per capita, than Palestinians: a spur, if ever there was one, for a resumption of the Intifada.Elsewhere in the world, even the hottest conflicts over water supply have been resolved through negotiation. But with the recent re-election of Benjamin Netanyahu, who campaigned on the outright rejection of a two-state solution to the region’s troubles, the prospect of a fairer water-sharing arrangement for Palestine look more remote than ever. 

A simple lifeform?

High Tech, Low Life -- The Amazing Flagellum
David Klinghoffer







As Stephen Meyer puts it in a brief video, the bacterial flagellar motor that Michael Behe spotlighted in  Darwin's Black Box is a marvel of nanotechnology. Yet this miniature motor is found in some of life's humblest organism. Moving up the scale to more complex forms, obviously the wonder increases.

On the other hand, as microbiologist Scott Minnich points out here, the flagellum is so effective at doing its job that if human swimmers could move that fast, we'd be setting some crazy new Olympic records -- 20 body lengths per second, which is to say, on our scale, some 120 feet per second. That's fast.

Dr. Minnich mentions two top Olympic swimmers, Mark Spitz and Michael Phelps. Interestingly, someone  did the math  on Phelps and computed that he swims about 1 body length per second, compared to a gold fish that swims at 4.5 body lengths per second.

So the flagellum is way out of ahead of the fastest human swimmers, and well ahead of a goldfish. It's not the speed alone that's impressive, however, but the incredible micro scale. [Update: Thanks to thoughtful reader Per for a correction here regarding sailfish.]

As we point out in the new hour-long documentary Revolutionary: Revolutionary: Michael Behe and the Mystery of Molecular Machines, the flagellum is just one known molecular machine whose irreducible complexity defies Darwinian explanations but fits well with the hypothesis of intelligent design. Get your copy of Revolutionary now on DVD or Blu-ray!

Sunday, 30 September 2018

On origins and the design debate.

Pre darwinian design v. materialistic OOL.

In BIO-Complexity, Meyer and Nelson Debunk DRT
Ann Gauger 

Origin-of-life research has a big problem, and the DRT model purports to solve part of it. In a peer-reviewed paper published this week in BIO-Complexity Stephen C. Meyer and Paul Nelson take on DRT. What is DRT, exactly, you ask? Some background will help in explaining.

While DNA carries information necessary to build cells, it performs no chemistry and builds no cellular structures by itself. Rather, the information in DNA must be translated into proteins, which then can carry out the various chemical and structural functions of life. But there is no direct way to convert a given DNA sequence into a protein sequence -- no direct chemical association between DNA nucleotides and amino acids. Some sort of decoding mechanism is needed to translate the information encoded in DNA into protein.

That decoding mechanism involves a whole host of enzymes, RNAs and regulatory molecules, all functioning as an elegant, efficient, accurate and complicated system for copying and translating the information in DNA into a usable form. (For a comprehensive and engaging description of how information is processed in the cell, and how the details of this process have been discovered, see Stephen C. Meyer's  Signature in the Cell.)

The problem is, this decoding system is self-referential and causally circular. Explaining its origin becomes a chicken and egg problem. As it stands now, you need the machinery that translates DNA into protein in order to make the very same machinery that translates DNA into protein. This should give us pause, because causal circularity cannot be explained in purely naturalistic terms. In order to avoid this trap, neo-Darwinian evolution would require the prior existence of another way to specify and carry out protein-like functions in a heritable fashion, but apart from the usual machinery -- DNA, RNA and protein, all three working together.

So when it was discovered that some RNAs could carry out (very limited!) chemical reactions, scientists seeking a purely materialistic explanation for life's origin were thrilled. Perhaps here was the solution to the conundrum. Perhaps RNAs could be both catalysts and heritable information carriers. Perhaps the first living world was RNA-based.

Fast forward to now. Researchers continue to try to design RNAs that can copy themselves, and try to expand the range of chemistries they can carry out. The RNA world, if it ever existed, though, would be a very impoverished place, based on what human designers have been able to produce so far. And the problem of how an RNA world could become a DNA/RNA/protein world would still remain.

Enter the  Direct RNA Templating (DRT) model of Michael Yarus et al. His hypothesis was originally based on the discovery that the activity of one RNA catalyst could be blocked by the presence of the amino acid arginine. From this result Yarus hypothesized that perhaps other RNAs would show an affinity for particular amino acids. In a series of papers he and his coworkers identified other such RNAs. Then, based on statistical analysis,  they argued that these RNAs contained a higher than expected frequency of triplets corresponding to the particular codons or anticodons now used in the modern genetic code to specify the particular amino acid they bound.

But is their analysis correct? Meyer and Nelson carefully examine the claims of Yarus et al. and find them wanting. Inadequate null hypotheses, arbitrary selection of data for analysis, and unrealistic assumptions about prebiotic chemistry are just a few of the problems. Rather than go through their arguments here, I encourage you to read their paper yourself.


Why does it matter? Critics of intelligent design have advanced the DRT model as the answer to the sequencing problem -- how genetic information in RNA (in the hypothetical RNA world) eventually could have been translated into more stable and versatile proteins. Based on the analysis in this paper, however, the sequencing problem has not been solved, even partially. There is no natural affinity between RNAs, amino acids, and codes. And the origin of life remains inexplicable in materialistic terms.

On decanonising scientism.

Lessons from the Wansink Science Scandal

What pedagogical methods best prepare students to engage with science? Quality science education, especially regarding evolutionary theory, is inquiry-based, not dogmatic. 


Over at the Washington Post, Alan Levinovitz, associate professor of religious studies at James Madison University,  wrote an article reflecting on the recent Brian Wansink science scandal. He comes to the conclusion that science education often errs by omitting instruction about critical thinking. 
Who is Brian Wansink? From the Associated Press:

A prominent Cornell University food researcher resigned after an investigation found he committed academic misconduct, including misreporting data, the school announced Thursday.

Brian Wansink has been removed from all teaching and research positions and will retire at the end of the school year next June, Cornell said in a statement.

Wansink had previously helped update the U.S. dietary guidelines and is known for his research on consumer behavior, which has been widely cited including in articles by The Associated Press.

Cornell says Wansink’s academic misconduct also included “problematic statistical techniques, failure to properly document and preserve research results, and inappropriate authorship.”

Thursday’s announcement comes a day after six more of Wansink’s papers were retracted. The most recent retractions included a 2005 paper that said people eat more when served in large bowls and a 2013 article that said grocery shoppers buy food with more calories when they’re hungry.
Levinovitz describes Wansink’s fall as “painful to watch.” He had written on the professor’s studies in the past, but notes that he no longer trusts any of Wansink’s research: 
Most important, I no longer trust myself. I take pride in being a steely-eyed skeptic, wary of too-good-to-be truths. Yet my critical apparatus was hijacked by Wansink’s apparent altruism and his alignment with my own beliefs about the power of branding…
The State of Science
What does the Wansink ordeal reveal about the state of science? 

“In theory, the scientific method is objective. But in reality, science is produced, interpreted and reported by humans — humans who are fallible, biased and self-interested,” Levinovitz states. 
In the wake of the Wansink scandal, there have been renewed calls for reforming the methods and culture of scientific inquiry: open data to allow for outside verification of results, pretrial registration so researchers can’t sift through results to come up with post hoc conclusions. The intense pressure of academia’s “publish or perish” mantra is no longer seen as an engine of discovery, but rather a possible enemy of honest inquiry.
I agree. Science ought to be subject to more scrutiny. I would also add that biases in science lead to some evidence — such as evidence contrary to evolutionary theory — being excluded from mainstream publications.
“A Big Book of Important Truths”
Professor Levinovitz also wants to reform science education. “When I was a child, scientific knowledge was presented to me as though it came from a big book of Important Truths,” he notes. An approach like that does not prepare citizens to critically evaluate research like Wansink’s. 

“Reforms to the culture of science need to be accompanied by reforms in science education,” says Levinovitz. 
Textbooks should include case studies of how industry funding can skew results. The standard suite of experiments should include at least a few meant to illustrate confirmation bias. Statistical tricks such as post hoc generation of conclusions from a large data set are not difficult to understand, and they should be laid out clearly as cautionary tales.
It is important not only for critical inquiry to be used in evolutionary biology, but also for students to learn about Darwin’s theory and the modern evolutionary synthesis by practicing what it means to weigh the evidence objectively.  Our Science Education Policy calls for teaching the scientific strengths and weaknesses of evolution, noting: “[E]volution should be taught as a scientific theory that is open to critical scrutiny, not as a sacred dogma that can’t be questioned.” Why? Good science avoids dogmatism. 
Beyond Science
This is also worth pointing out: Levinovitz at the end of his article finds himself looking beyond science to the realm of ethics. “STEM education needs to emphasize moral virtues for what they really are: key features of the scientific method,” he writes. 

Wow. 

He concludes this way: 
[R]eflecting on Wansink’s fall, we should remember that what we want to believe — what’s easiest to believe — isn’t necessarily true. Insisting on believing it anyway? That’s the opposite of good science, and good scientists and science educators should lead the fight against it.
Well said. it would be interesting to know whether Professor Levinovitz sees the importance of extending this philosophy to the study of evolution.

Saturday, 29 September 2018

On Darwinism's 'simple beginning' problem.

Never mind what your eyes tell you:

New York Times: "We are Sarcopterygian Fish," If You Ignore Contrary Data
Casey Luskin 

Given its prior history of pushing Tiktaalik  as an icon of evolution (now thoroughly toppled), the New York Times has an obvious fascination with the idea that tetrapods (four-limbed vertebrates like frogs, birds, cows, and humans) evolved from fish. Now the Times Science section is at it again with an article titled "Fish's DNA May Explain How Fins Turned to Feet"
The article highlights a recent paper in Nature, reporting on the sequencing of the genome of the coelacanth, a famous fish often called a "living fossil" which is descended from the line of fish that supposedly evolved into tetrapods. Reporter Nicholas Wades writes that "the coelacanth is more closely related to people than to other fish," and he quotes Axel Meyer, an evolutionary biologist who co-authored the study of the coelocanth genome, who says: "Evolutionarily speaking, we are sarcopterygian fish." Sarcopterygians include the lungfish, coelacanth, and "evolutionarily speaking," tetrapods like you and me.


Is Meyer right? According to the NYT, there are two main pieces of relevant evidence. First, the coelocanth has "one gene that is related to those that, in animal species, build the placenta," and "[t]his gene could have been developed by land animals into a way of constructing the placenta."


The real story isn't quite that interesting. According to the Nature paper, a particular region of DNA associated with a Hox gene cluster in the coelocanth genome showed sequence homology with a stretch of Hox gene-related DNA in tetrapods. Hox genes are known to be widely conserved among vertebrates, so the fact that homology was found between Hox-gene-associated DNA across these organisms isn't very surprising. The authors aren't sure exactly what this particular segment of DNA does, though it's probably a promoter region. In mice the corresponding homologous region is associated with Hox genes that are important for forming the placenta. Ergo, we've solved the mystery of how the placenta evolved. Right?


Not really. Again, all that was found was a little homologous promoter region in Hox-gene related DNA in these two types of organisms. Given that we don't even understand exactly what these genes do or how they work, obviously the study offered no discussion of what mutations might have provided an evolutionary advantage. No evolutionary pathway was proposed, or even discussed. So there's not much meat to this story, other than a nice little region of homology between two shared, functional pieces of Hox-gene-related DNA. But of course, such shared functional DNA could be the result of common design and need not indicate common descent or Darwinian evolution.


The NY Times goes on, offering the second piece of evidence: "Another helpful preadaptation is a snippet of DNA that enhances the activity of the genes that drive the formation of limbs in the embryo." When they inserted this enhancer into mice, according to Neil Shubin, "It lit up right away and made an almost normal limb."


What's that he said? "Preadaptation"? Darwinian evolution isn't supposed to have any goals, so whenever I see that term I get suspicious that there's something non-Darwinian going on. So long as we're discussing the coelacanth's supposed "preadaptation" for life on the land, consider what vertebrate paleontologist Barbara Stahl wrote about coelacanth anatomy:


[T]he modern coelocanth shows no evidence of having ... internal organs preadapted for use in a terrestrial environment. The outpocketing of the gut that serves as a lung in land animals is present but vestigial in Latimeria. The vein that drains its wall returns blood not to the left side of the heart as it does in all tetrapods but to the sinos venosus at the back of the heart as it does directly or indirectly in all osteicthyans except lungfishes. The heart is characteristically fish-like in showing no sign of division into left and right sides, and the gut, with its spiral-valved intestine, is of a type common to all fishes except the most advanced ray-fins.

At one time, paleontologists thought that coelocanths, like air-breathing tetrapods, had nasal passages that opened into the mouth cavity, but dissection of Latimeria disroved that idea. Despite their fleshy fins, the coelocanths were no nearer the ancestral stock of land vertebrates than the dipnoans, fishes in which internal nares, or choanae, were also shown to be nonexistent.


(Barbara J. Stahl, Vertebrate History: Problems in Evolution, p. 146 (Dover Publications, 1985).)


The coelocanth's anatomy doesn't make a very compelling case for "preadaptation" for land-based life, but the NY Times story about genetic "preadaptation" isn't very compelling either. Here's what they really found.

An enhancer is a short stretch of DNA that helps to enhance transcription of a gene by serving as an attachment point for proteins that are involved in recruiting RNA polymerase II, and various transcription factors necessary to transcribe the gene into RNA. The study found that an enhancer for a Hox gene involved in fin-development in coelocanths has sequence homology with an enhancer associated with a Hox gene involved in limb-development in mice. When the investigators inserted the coelocanth enhancer into the mouse, the mouse apparently grew what Neil Shubin called an "almost normal limb."


Actually, the technical paper didn't report the growth of any limbs -- whether "almost normal" or totally normal -- but rather only a "limb bud." But that's just a detail -- because even if a limb had grown, this wouldn't mean much for Darwinian evolution.


Again, it's well known that Hox genes are conserved throughout most vertebrates, including fish (like the coelacanth) and tetrapods (like mice). In this case, the genetically homologous enhancer in the two organisms seems to have had a similar, homologous function as well: in coelacanth it enhanced a Hox gene for building fins, and in mice it enhanced a Hox gene for building limbs. This similarity of function and genetic role makes it unsurprising that that these enhancers had a similar DNA sequence. The similarity of function, genetic role, and DNA sequence is thus interesting, but it's not overly surprising to find that it sort of worked when inserted in a mouse.


But what's evolution got to do with any of this? The experiment worked because of functional and genetic similarities between the coelacanth enchancer and the mouse enchancer. Once again, such similarities of sequence and function could be explained by common design and don't necessarily tell us much about common descent.


Inconvenient Immunoglobulin Data


So what are we to make of the NY Times's statement that "the coelacanth is more closely related to people than to other fish" or that "we are sarcopterygian fish"? Well, the article didn't mention one important piece of evidence from the coelocanth genome that contradicts those claims.


According to the  study in Nature, "The fish [coelocanth] is the first vertebrate found to lack genes for immunoglobulin-M [IgM], an almost universal immune-system protein." That's a bit weird, but it gets much weirder. According to the technical paper:


IgM genes cannot be found in coelacanth, despite an exhaustive search of the coelacanth sequence data, and even though all other major components of the immune system are present. Instead, we found two IgW genes; immunoglobulin genes that are found only in lungfish and cartilaginous fish and are believed to have originated in the ancestor of jawed vertebrates but subsequently lost in teleosts and tetrapods.

(Amemiya et al., "The African coelacanth genome provides insights into tetrapod evolution," Nature, Vol. 496:311-316 (April 18, 2013) (internal citations omitted).)



This means that if we were to construct a phylogenetic tree of vertebrates based upon the IgW gene, we would get a bizarre tree that dramatically conflicts with the standard vertebrate tree. To understand why, let's first look at the standard vertebrate phylogeny, shown in the Nature paper:

vertebratephylogeny.png

Figure A: Reprinted from Figure 1, Amemiya et al., "The African coelacanth genome provides insights into tetrapod evolution," Nature, Vol. 496:311-316 (April 18, 2013). Image used under a Creative Commons license, Attribution-Noncommercial 2.5. Usage not intended to imply endorsement by the authors/creators of the image.

This standard phylogeny could be simplified to look something like this:

Figure B: A simplified version of the standard vertebrate phylogeny.

But according to the IgW data, very roughly speaking, the vertebrate phylogeny should look something like this:



Figure C: A very rough sketch of what the vertebrate phylogeny might look like based upon the IgW gene.

Compare Figures B and C. Do you see the difference? In the standard phylogeny (Figure B), tetrapods (like you and me) are much more closely related to the coelocanth or lungfish than we are to ray-finned fish (like the goldfish). But in an IgW-based tree (Figure C), tetrapods should be much more closely related to goldfish than to the coelocanth or the lungfish. That's startling and unexpected -- if you're a proponent of common descent.

How does the Nature paper explain this phylogenetically incongruent data? In the passage I cited above, their explanation is that "immunoglobulin genes that are found only in lungfish and cartilaginous fish and are believed to have originated in the ancestor of jawed vertebrates but subsequently lost in teleosts and tetrapods."

Of course this requires some extremely unparsimonious and unlikely events. Since IgW is found in vertebrates as diverse as lungfish and cartilaginous fish (e.g., sharks), a Darwinian evolutionary view would infer that the gene for IgW was present in the ancestor of all jawed vertebrates. If so, then IgW must have stuck around in vertebrates long enough to end up in the sarcopterygian line. But somehow evolutionary theory must explain why tetrapods and all teleosts lack this gene.

Perhaps the loss of IgW in tetrapods isn't very hard to explain -- maybe IgW was lost in the early stages of the line that branched off other sarcopterygians and led to tetrapods.

But with teleosts, this story is much harder to believe. According to the standard evolutionary account, this ancient group of vertebrates diverged and began to diversify before the sarcopterygians (lungfish, coelocanths, and ultimately tetrapods) branched off. Since lungfish and coelocanths have IgW, somehow IgW was lost in all known teleosts, independently, and after the line that led to sarcopterygians branched off, so that today all teleosts lack this gene.

This highly unparsimonous evolutionary story is the only way (and the way the Nature paper chooses) to explain why teleosts and tetrapods lack IgW, but lungfish and coelacanths don't. A more straightforward and plausible account of vertebrate relationships would suggest a phylogeny (Figure C) that's quite incompatible with the standard vertebrate phylogeny.

No wonder the New York Times decided not to mention this inconvenient data point that has emerged from the coeolocanth genome: it suggests the coelacanth is NOT "more closely related to people than to other fish," and that "we are" -- yes, big surprise -- NOT "sarcopterygian fish."

One Darwinian gatekeeper's journey to the 'dark side'