What'sNEW April–May 2010
Nature asked eight synthetic-biology experts about the implications for science and society of the "synthetic cell" made by the J. Craig Venter Institute, reported online by Science. "Life after the synthetic cell" [html], doi:10.1038/465422a, p 422-424 v465, Nature, 27 May 2010. "Challenges of our own making" [html], doi:10.1038/465397a, p397 v465, Nature, 27 May 2010. Daniel G. Gibson et al., "Creation of a Bacterial Cell Controlled by a Chemically Synthesized Genome", doi:10.1126/science.1190719, p52-56 v329, Science, 2 Jul (online 20 May) 2010. 2 Jul 2010: Gabriel Manzotti points us to "Intergalactic legacy," by Chandra Wickramasinghe, connecting Venter's project to panspermia. Thanks, Stan Franklin. 24 May 2010 The SPIE Astrobiology Conference will again be in San Diego, CA, in early August. This year's chairs are Richard B. Hoover, NASA Marshall Space Flight Center; Gilbert V. Levin, Arizona State University; Alexei Yu. Rozanov, Paleontological Institute (Russian Federation); and Paul C. W. Davies, Arizona State University For the first time in our memory, Nobel laureate Charles Townes will participate in the Tuesday evening panel discussion that is a regular feature of this conference. Instruments, Methods, and Missions for Astrobiology XIII, San Diego, CA, 3-5 Aug 2010. 20 May 2010 A conversation with Jeffrey L. Bada, a prominent origin-of-life researcher at the University of California, San Diego, is available in transcript. It is intriguing to learn more about Stanley Miller's lab vials that were stored in a cardboard box and almost forgotten for over fifty years (unprotected by the stringent anti-contamination protocols that would be required nowadays.) Also, Bada now believes that DNA-based life appeared about a billion years after Earth formed, and he is sure that amino acids in meteorites were produced by pre-biotic chemistry. But our main concern with all origin-of-life research is the elephant in the room, the software problem.
Claudia Dreifus, "A Marine Chemist Studies How Life Began" [html], pD2, The New York Times, 18 Apr 2010. A brief history of panspermia that includes unfamiliar names, like Benoît De Maillet is available: Milton Wainwright and Fawaz Alshammari, "The Forgotten History of Panspermia and Theories of Life From Space," May 2010. 12 May 2010 Past life on Mars is still the best explanation for the fossils in ALH84001, according to the NASA team that first made the claim about this meteorite in 1996. Their latest work, including probing chemical analyses of grains in the meteorite, was reported at the Astrobology Science Conference in Texas, 26-29 April. K. L. Thomas-Keprta et al., "New Insights into the Origin of Magnetite Crystals in ALH84001 Carbonate Disks" [5102.pdf], Astrobiology Science Conference, 26 Apr 2010. Everett K. Gibson et al., "Early Mars: A warm wet niche for Life" [5062.pdf], Astrobiology Science Conference, 29 Apr 2010. Marc Kaufman, "NASA team cites new evidence that meteorites from Mars contain ancient fossils" [html], The Washington Post, 4 May 2010. Life on Mars! is the related local webpage. Thanks, Larry Klaes. 10 May 2010 Extraterrestrial life exists and there's evidence to prove it. So reads a banner on the back cover of We Are Not Alone, a new book by an American astrobiologist and British science writer. Almost half the book deals with the case for life on Mars, including two chapters about the Viking probes, whose seemingly-conflicting results are fully discussed. A new resolution to the Viking puzzle would require microbial life with an unusual yet credible metabolism, the writers suggest. (But the difference between speculative hypotheses and generally accepted, conservative science is clear throughout the book.) The Mars section also has chapters on the Allen Hills meteorite, water on Mars, and Phoenix and future Mars missions. Subsequent chapters consider evidence for life or past life on Venus, Europa and other moons, and especially, Titan, where "a separate origin of life would be almost guaranteed because of the extreme unlikelihood of organisms being transported on meteorites between the inner and outer solar system." But this opinion ignores the possibility that water-dependent, carbon-based life is widely distributed in the universe, as we believe. Naturally, we found a few items like this to disagree about. And the pledge of allegiance to darwinism (p 170) seems out of place; was it required to satisfy the orthodoxy committee? However, there was much more that we like, beginning with the conclusion about Mars: "We believe that the Viking landers found life on Mars and that more recent evidence, especially from Martian meteorites and the discovery of methane on the Red Planet, strongly supports this claim." In general, we welcome the writers' attention to the wide range of issues pertaining to astrobiology, including insights about future missions. The book is well-organized, well-written and appropriately-illustrated. Moreover it is informative, imaginative, and, we think, persuasive. Highly recommended!
Dirk Schulze-Makuch and David Darling, We Are Not Alone: Why We Have Already Found Extraterrestrial Life, Oneworld Publications, Mar 2010. After transfer, transposable elements multiply and disperse in the genome, with a range of effects mostly unexplored. We suggest that they are part of the genomic software management system required for cosmic ancestry. In any case, the research team, headed by Cédric Feschotte, concludes,
...The sheer amount of DNA generated by the amplification of the transposons and the myriad ways through which mobile elements can alter the structure and function of genomes support the idea that the exchange of genetic material between host and parasite species could strongly affect genome evolution.
Clément Gilbert et al., "A role for host-parasite interactions in the horizontal transfer of transposons across phyla" [abstract], doi:10.1038/nature08939, p1347-1350 v464, Nature, 29 Apr 2010.
According to darwinism, genes are supposed to be originally composed by mutation-and-selection. However, in spite of massive, worldwide genomic research, there are few or no convincing examples of such darwinian de novo composing. We think this lack is a crisis for strict darwinism. Meanwhile, examples of horizontal gene transfer (HGT) are piling up. If HGT provides genes with macroevolutionary benefits to aphids, from fungi, the surprise is ongoing. We think this trend points to a way out of the crisis.
Nancy A. Moran and Tyler Jarvik, "Lateral Transfer of Genes from Fungi Underlies Carotenoid Production in Aphids", doi:10.1126/science.1187113, p624-627 v328, Science, 30 Apr 2010.
We remark, for what it's worth — Subfunctionalization is compatible with both cosmic ancestry and strict darwinism, but it does not compose programs for new functions. Horizontal gene transfer (HGT) is a basic prediction of cosmic ancestry, but surprising to darwinism. Genes with no apparent origin are the rule in cosmic ancestry, and mysterious in darwinism.
Rafael F. Say and Georg Fuchs, "Fructose 1,6-bisphosphate aldolase/phosphatase may be an ancestral gluconeogenic enzyme" [abstract], doi:10.1038/nature08884, p1077-1081 v464, Nature, 15 Apr 2010. In cosmic ancestry, life uses a toolkit of genes that are very (very) old. Delivered by horizontal gene transfer (HGT), acquired genes may sometimes wind up where they are irrelevant or harmful. But other times they would supply the programs needed for evolutionary advances. Dirk Schulze-Makuch et al., "Microbial Life in a Liquid Asphalt Desert" [abstract], arXiv:1004.2047v1, 12 Apr 2010.
...Estimates are now more than 1 billion microorganisms in a liter of seawater or a gram of seabed mud.
This last surprise is especially interesting. It supports the supposition that major evolutionary steps depend on genetic programs that are available in the biosphere. Here we see that they could be already installed in separate species that are ready to thrive immediately.
Explorers Inventory Hard-to-See Sea Life has links to the full newsrelease from the Census of Marine Life, 18 Apr 2010. Astrobiology Science Conference 2010, League City, TX, 26-29 Apr 2010.
"The detection of this HGT was possible owing to two favourable factors: Β-porphyranases are absent in terrestrial microbes, and the transfer was relatively recent compared to the millions of years of mammalian gut microbiome evolution." "The results suggest that ingested bacteria may have provided a valuable genetic resource for gut microbes throughout human history...." Obviously, horizontal gene transfer (HGT) can be important for symbionts, too.
Jan-Hendrik Hehemann et al., "Transfer of carbohydrate-active enzymes from marine bacteria to Japanese gut microbiota" [abstract | Editor's Summary], doi:10.1038/nature08937, p908-912 v464, Nature, 8 Apr 2010. 11 April 2010 Intelligent life beyond Earth may have left an encoded message in DNA. This is among the suggestions in a wide-ranging and informative article by Paul Davies of Arizona State University about the search for extraterrestrial intelligence (SETI). Davies thinks that an advanced civilization could have "uploaded the data into the junk DNA of terrestrial organisms." Of course, panspermia distributes DNA; does that count as "uploading"? In any case, we welcome his imaginative discussion of the topic in WSJ's weekend edition. We are less enthusiastic about the comicbook illustrations. Paul Davies, "Is Anybody Out There?" [link], p W1-W2, The Wall Street Journal, 10-11 Apr 2010. 9 April 2010 How life might travel through space is one of the questions addressed by Dr. Alan Tunnacliffe (pictured) of the Institute of Biotechnology at Cambridge University. He studies life's capability to survive harsh conditions including drying, extreme temperatures and pressures, and intense radiation. In a short video he shows tiny rotifers reviving after exposure to such extremes. Just Add Water, 5:45 minute YouTube video from Cambridge University, 6 Apr 2010.
Multicelled animals live and multiply without oxygen in the deep ocean. A team from the Polytechnic University of Marche, Ancona, Italy, discovered them in anoxic, sulfidic sediments 3,000 meters underwater in the Atalante basin of the Mediterranean Sea. The observed animals are designated as three new species in the Loricifera phylum, but their cells lack the mitochondria that supply energy in most eukaryotes. Instead they have organelles resembling the hydrogenosomes found in anaerobic microbes. Commentators are suggesting that such species may have been far more plentiful when Earth had little free oxygen. We think animals like them might live in anoxic oceans on other worlds as well.
Roberto Danovaro et al., "The first metazoa living in permanently anoxic conditions" [abstract], doi:10.1186/1741-7007-8-30, BMC Biology, 6 Apr 2010. 3 April 2010 Whole chromosomes can be horizontally transferred into reproductively isolated strains of fungi. So reports an international team studying the Fusarium genus of fungi whose different species cause various diseases in plants. One species, F. oxysporum, has four chromosomes that other members of the genus lack. These "lineage specific" (LS) chromosomes are rich in transposable elements, and the F. oxysporum genome contains ~40 to ~60 times more repetitive elements than two reference species. The geneticists surmised that the LS chromosomes were acquired by transfer. They then asked whether the transfer of whole chromosomes between genetically isolated strains of these fungi could be demonstrated. It was demonstrated, and the related phenotypic differences were expressed. "Experimentally, we have demonstrated the transfer of entire LS chromosomes through simple co-incubation between two otherwise genetically isolated members of [F. oxysporum].... Spontaneous horizontal transfer of such a large portion of a genome and the direct demonstration of associated transfer of host-specific pathogenicity has not been previously reported." Horizontal gene transfer (HGT) can quickly and powerfully affect evolution. In darwinian theory this capability is a surprise that gets scant attention. In cosmic ancestry HGT is not surprising but essential. Now we see that some fungi (eukaryotes!) can acquire whole chromosomes, ready for immediate use. Wow.
Li-Jun Ma, H. Charlotte van der Does et al., "Comparative genomics reveals mobile pathogenicity chromosomes in Fusarium" [abstract], doi:10.1038/nature08850, p367-373 v464, Nature, 18 Mar 2010. | ||||||
COSMIC ANCESTRY | Quick Guide | What'sNEW - Later - Earlier - Index | by Brig Klyce | All Rights Reserved |