Images: a section through a GEMS grain revealing (a) amorphous mineral subgrains and (b) the corresponding carbon element map with organic rims on the subgrains.
Multiple generations of grain aggregation in different environments preceded solar system body formation by Hope A. Ishii et al., PNAS, 11 Jun 2018.
Experiments trace interstellar dust back to solar system's formation, University of Hawai'i News, 12 Jun 2018.
NASA captures the primordial dust that formed the planets, Nature, 13 Jun 2018.
Hoyle and Wickramasinghe's Analysis of Interstellar Dust includes a brief introduction to the subject.
Watch ...Bacteria Harpoon and Swallow DNA to Evolve by Rafi Letzter, LiveScience.com, 12 Jun 2018.
Using Harpoon-Like Appendages, Bacteria 'Fish' for New DNA by Steph Yin, NYTimes.com, 14 Jun 2018. Thanks, Google Alerts and Newswise.
Retraction of DNA-bound type IV competence pili initiates DNA uptake during natural transformation in Vibrio cholerae by Courtney K. Ellison et al., Nature Microbiology, 11 Jun 2018. Viruses... describes various methods of HGT.
A large fraction of this pan-genome codes for proteins without homologs in cells or other viruses, raising the question of their origin. The analysts acknowledge that random nucleotides are statistically unlikely to ever become functional genes. Besides, the large mutation rate that this exploration would need is not supported by the "strong purifying selection" that the ORFan genes are observed to be under. Nevertheless, the French genomicists conclude, "The pandora genome... offers an ideal playground for de novo gene creation."
Hmm. We admire the diligence that led to discovering these giant viruses from far and wide, and we appreciate the depth and rigor of the new study. But we think the surprising data are better explained if genes simply come first and viruses harbor most of them. Cellular genes in viruses would then make sense, and the unfamiliar novel genes in them would have a purpose — potential future use. Granted, even by cosmic ancestry, evolution would be hit-or-miss. Still, we think it offers the simplest and most elegant solution.Diversity and evolution of the emerging Pandoraviridae family by Matthieu Legendre et al., doi:10.1038/s41467-018-04698-4, Nature Communications, 11 Jun 2018.
...giant viruses invent their own genes, The National Center for Scientific Research (+SciencedDaily), 11 Jun 2018.
Thanks, Martin Langford and Jerry Chancellor, who asks, "Where is the selection pressure?" Right.
Viruses... is related. Three New Human Genes has become our main webpage about de novo genes.
NASA Finds Ancient Organic Material, Mysterious Methane on Mars, news release 18-050, NASA, 07 Jun 2018.
Organic molecules on Mars by Inge Loes ten Kate; Organic matter preserved in 3-billion-year-old mudstones at Gale crater, Mars by Jennifer L. Eigenbrode et al.;
Background levels of methane in Mars' atmosphere show strong seasonal variations by Christopher R. Webster et al., Science, 08 Jun 2018.
Life on Mars? Rover's Latest Discovery Puts It 'On the Table', The New York Times, 07 Jun 2018. Thanks for an assist, John Wylie.
Life on Mars! and A fossil on Mars... are related.
Life on Mars! has background info and links. Thanks, Bill Smith.
A multi-disciplinary team has reconstructed the evolutionary history of a gene apparently essential for the development of human brains. Its action in the developing fetus prolongs the growth of the cortex, and defects in the gene correlate with harmful syndromes. Only humans have this gene, but chimps and gorillas have closely related pseudogenes.
"This suggests a plausible evolutionary history of NOTCH2NL genes as follows: Both the PDE4DIP-NOTCH2NL and MAGI3-NOTCH2NL fusion pseudogenes were present in the LCA of human, chimp, and gorilla. Then, only in the human lineage, the ancestral PDE4DIP-NOTCH2NL fusion gene was 'revived' by NOTCH2 through ectopic gene conversion. With the acquisition of exon 1 and the upstream promoter, a viable NOTCH2NL gene encoding a stable NOTCH2-related protein was created. ...The revived human NOTCH2NL subsequently duplicated twice more to form three nearly identical NOTCH2NL genes.... [W]e estimate that the gene conversion event generating a functional NOTCH2NL happened between 4 and 3 million years ago (mya). This corresponds to a time just before or during the early stages of the expansion of the human neocortex."
A profound evolutionary advance among anthropoids apparently required this intricate process. We do not think standard darwinism explains how this could happen. The production, maintenance and reactivation of pseudogenes, for example, are a complete surprise. The orthodox darwinian speculations from The Economist are especially amusing. But if genomes are able to acquire, assemble, deploy, test and optimise pre-existing programs, as in cosmic ancestry, this and related examples make sense.Human-Specific NOTCH2NL Genes Affect Notch Signaling and Cortical Neurogenesis by Ian T. Fiddes, Gerrald A. Lodewijk, et al.; and Human-Specific NOTCH2NL Genes Expand Cortical Neurogenesis through Delta/Notch Regulation by Ikuo K. Suzuki et al., Cell, 31 May 2018.
...Genes That May Have Influenced Human Brain Size, Howard Hughes Medical Institute (+Newswise), 31 May 2018. A history of big-headedness, The Economist, 31 May 2018.
Human Genome Search and New genetic programs... describe a research project to learn the extent to which new human genes depend on horizontal gene transfer (HGT) — including the acquisition of exons and promoters.
John Lattanzio, Professor of Astrophysics at Monash University, wonders if the word "indisputable" is too strong. Ted Steele and other coathors, including me, respond, 20-21 May 2018.
Dave Carlson sends compliments and discussion prompted by a topic in the paper, 24 May 2018. One mostly favorable review comes today from a surprising source, a website that promotes Intelligent Design. The reviewer naturally agrees that darwinism does not adequately account for many aspects of evolution, but complains that panspermia doesn't provide ultimate origins. "They are really just pushing the question backward." That ignores our scientific alternative with no need for origins, but we still enjoyed this review.
...Scientists Reach (Literally) for the Stars, Evolution News, 25 May 2018. Thanks, Google Alerts.
metanoia (met-uh-NOI-uh): A profound transformation in one's outlook | A.Word.A.Day, 28 May 2018.
Cause of Cambrian Explosion - Terrestrial or Cosmic? by Ted Steele et al., online 13 Mar 2018.
21 Mar 2018: our first links to and about the subject paper.
To them the novel ones imply that the transition was accompanied by an increase of genomic innovation, including many new, divergent, and subsequently ubiquitous genes encoding regulatory functions associated with animal multicellularity. ...There are two alternative scenarios that could explain these patterns.... The first ...would imply an extended 'stew' in which the molecular components of animal biology were assembled. ...The second possibility involves many new genes emerging during a short 'popcorn' stage....What we find remarkable is that neither the genes that apparently predate animals, nor the novel ones noticed now (quantified by green numbers at every stage in the phylogeny below), have any discernable darwinian provenance. For the novel ones, the "extended stew" has no direct supporting evidence, and the "popcorn stage" has no credible mechanism. None of it makes darwinian sense. But genes that come first, and genes without darwinian provenance are longstanding predictions of cosmic ancestry.
Reconstruction of the ancestral metazoan genome reveals an increase in genomic novelty by Jordi Paps and Peter W. H. Holland, doi:10.1038/s41467-018-04136-5, Nature Communications, 30 Apr 2018.
The Very First Animal Appeared Amid an Explosion of DNA by Carl Zimmer, The New York Times, 04 May 2018.
Metazoan Genes Older Than Metazoa? and Genes Older Than Earth? discuss genes that come first.
New genetic programs... predicts genes that "seem to have come from nowhere."
Three New Human Genes is about de novo genes, the ones with recognizable precursors that were silent, non-functional, aka "junk" sequences. (If that's a provenance, it is not darwinian.) Thanks, Genevieve Christy.
What are the eukaryotic and bacterial genes doing there? And where do so many unfamiliar genes keep coming from? What purpose could they serve? And why do the only ten tRNA genes in the genome lie consecutively along one strand of 879 nucleotides? None of this makes any darwinian sense, but similar evidence is commonplace.
We think alternatives more congruent with the evidence deserve consideration. Of course, horizontal gene transfer (HGT) well explains the close homology between virus and host genes. And cosmic ancestry would give the anomolous genes a reason for being there.A giant virus infecting green algae encodes key fermentation genes by Christopher R. Schvarcz and Grieg F. Steward, doi:10.1016/j.virol.2018.03.010, Virology, May 2018.
A new giant virus found in the waters off Oahu, University of Hawaii at Manoa (+ScienceDaily), 03 May 2018.
Viruses... lists many related examples. Thanks, Martin Langford.
Microbes Living in a Toxic Volcanic Lake Could Hold Clues to Life on Mars, University of Colorado Boulder via Newswise, 02 May 2018, re:
Lack of Microbial Diversity in an Extreme Mars Analog Setting: Poás Volcano, Costa Rica by Brian M. Hynek et al., doi:10.1089/ast.2017.1719, Astrobiology, online 24 Apr 2018.
Bacteria... has more about extremophiles. Life on Mars! is related.
Viruses... has background and What'sNEW links to hundreds of other examples of HGT benefitting eukaryotes.
Leave Mars to the robots by David Weintraub, LA Times.com, accessed 29 Apr 2018. Thanks, Bob Sweeney.
Mars probe poised to solve red planet's methane mystery, Nature News, 23 Apr 2018.
Survival of non-psychrophilic methanogens exposed to martian diurnal and 48-h temperature cycles by R.L.Mickol et al., Planetary and Space Science, online 21 Mar 2018, and commentary: ...Some Types of Life Can Survive Conditions Found on Mars, University of Arkansas (+Newswise), 23 Apr 2018. Life on Mars! has more about methane there.
...in ocean sediment ...the Anthropocene will likely only appear as a section a few cm thick....
Conceivably, deep drilling operations could be carried out on [Venus or Mars in the] future to assess their geological history. This would constrain consideration of what the fingerprint might be of life, and even organized civilization.
While we strongly doubt that any previous industrial civilization existed [on Earth] before our own, asking the question in a formal way that articulates explicitly what evidence for such a civilization might look like raises its own useful questions related both to astrobiology and to Anthropocene studies.
The Silurian Hypothesis: Would it be possible to detect an industrial civilization in the geological record? by Gavin A. Schmidt and Adam Frank, arXiv:1804.03748 [astro-ph.EP], online 10 Apr 2018.
It would be easy, therefore, to miss an industrial civilization that only lasted 100,000 years—which would be 500 times longer than our industrial civilization has made it so far.
Was There a Civilization On Earth Before Humans? by Adam Frank, The Atlantic, 13 Apr 2018. Thanks, Nature Briefing, Bob Sweeney, George Nickas and Stumble Upon.
Civilization Before Homo Sapiens?, commentary by Paul Gilster, Centauri Dreams, 18 Apr 2018.
How Would We Know...?, commentary by Charles Q. Choi, LiveScience, 18 Apr 2018.
Discovery of a hypersaline subglacial lake complex beneath Devon Ice Cap, Canadian Arctic by Anja Rutishauser et al., Science Advances, 11 Apr 2018.
...the lakes may have been sealed off ...for up to 120,000 years.
Isolated lakes found beneath Canadian ice sheet by Mary Halton, BBC News, 12 Apr 2018. Thanks, Bob Sweeney.
Life on Europa, Other Moons, Other Planets? and Earth-analogs for those environments has related links.
Colonising the galaxy is hard. Why not send bacteria instead? The Economist, 12 Apr 2018.
Panspermia Asks New Questions mentions directed panspermia among other varieties.
A Hydrothermal-Sedimentary Context for the Origin of Life by F. Westall et al., Astrobiology, 01 Mar 2018. The RNA World... has background and links about Origin-of-Life theories. These no longer deal with the software problem. Even the hardware problem is sometimes set aside while a conducive environment is suggested, as by Westall et al.
Human Genome Search and New genetic programs... describe a research project to learn if most new human genes come from horizontal gene transfer (HGT). Since transposons are likely installed by viruses, we think Trizzino et al. support the HGT hypothesis.
Viruses and Other Gene Transfer Mechanisms is the main related local webpage.