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Plants and Animals Sometimes Take Genes From Bacteria, Study Suggests (sciencemag.org)

An anonymous reader quotes a report from Science Magazine: Many genome studies have shown that prokaryotes—bacteria and archaea -- liberally swap genes among species, which influences their evolution. The initial sequencing of the human genome suggested our species, too, has picked up microbial genes. But further work demonstrated that such genes found in vertebrate genomes were often contaminants introduced during sequencing. [...] Debashish Bhattacharya, an evolutionary genomicist at Rutgers University in New Brunswick, New Jersey, and UD plant biochemist Andreas Weber took a closer look at a possible case of bacteria-to-eukaryote gene transfer that [William Martin, a biologist that concluded that there is no significant ongoing transfer of prokaryotic genes into eukaryotes, has challenged in 2015]. The initial sequencing of genomes from two species of red algae called Cyanidiophyceae had indicated that up to 6% of their DNA had a prokaryotic origin. These so-called extremophiles, which live in acidic hot springs and even inside rock, can't afford to maintain superfluous DNA. They appear to contain only genes needed for survival. "When we find a bacterial gene, we know it has an important function or it wouldn't last" in the genome, Bhattacharya says.

He and Weber turned to a newer technology that deciphers long pieces of DNA. The 13 red algal genomes they studied contain 96 foreign genes, nearly all of them sandwiched between typical algal genes in the DNA sequenced, which makes it unlikely they were accidentally introduced in the lab. "At the very least, this argument that [putative transferred genes are] all contamination should finally be obsolete," says Gerald Schoenknecht, a plant physiologist at Oklahoma State University in Stillwater. The transferred genes seem to transport or detoxify heavy metals, or they help the algae extract nourishment from the environment or cope with high temperature and other stressful conditions. "By acquiring genes from extremophile prokaryotes, these red algae have adapted to more and more extreme environments," Schoenknecht says.
While Martin says the new evidence doesn't persuade him, several insect researchers say they see evidence of such gene transfer. "I've moved beyond asking 'if [the bacterial genes] are there,' to how they work," says John McCutcheon, a biologist at Montana State University in Missoula who studies mealy bugs. The red algae, he adds, "is a very clear case."

44 comments

  1. Is this new? by Errol+backfiring · · Score: 4, Interesting

    As the human genome as embedded entire viruses and bacterial genes can be transported by virus-like creatures (Phages), I would think this was old news.

    --
    Nae king! Nae laird! Nae yurrupiean pressedent! We willna be fooled again!
    1. Re:Is this new? by Anonymous Coward · · Score: 1

      The cell organelles should be another case of the transfer as those apparently were bacteria at one point, if I recall correctly. Cell as a community of more primitive organisms is an interesting idea, just like the moving on from the idea of indivisible atoms.

    2. Re:Is this new? by Gilgaron · · Score: 3, Interesting

      Yes, chloroplasts are descended from cyanobacteria, mitochondria are descended from alpha proteobacteria.

    3. Re:Is this new? by macklin01 · · Score: 3, Interesting

      You can actually see mitochondria crawl inside cells.

      Here's an example, imaged over about 10 minutes: https://twitter.com/MAG2ART/status/1087386722667761665.

      Here's another gorgeous video I just found: https://www.youtube.com/watch?v=x5IxkI6tkn0

      --
      OpenSource.MathCancer.org: open source comp bio
    4. Re:Is this new? by Oswald+McWeany · · Score: 1

      As the human genome as embedded entire viruses and bacterial genes can be transported by virus-like creatures (Phages), I would think this was old news.

      Indeed. I remember learning about this in University 20+ years ago now.

      --
      "That's the way to do it" - Punch
    5. Re:Is this new? by Gilgaron · · Score: 1

      That video is great! Thanks for that, very cool!

    6. Re:Is this new? by macklin01 · · Score: 1

      You bet! Blew me away first time I saw it. Biology gets crazier the more you look. :-)

      --
      OpenSource.MathCancer.org: open source comp bio
  2. Outrageous!! by Freischutz · · Score: 1

    Plants and Animals Sometimes Take Genes From Bacteria, Study Suggests

    Ok, that is just blatant copyright infringement and IP theft all rolled into one ... the bacteria should lawyer up.

    1. Re: Outrageous!! by Anonymous Coward · · Score: 0

      Bacteria have never cared what scientists think

    2. Re: Outrageous!! by bobstreo · · Score: 3, Funny

      Bacteria have never cared what scientists think

      Yeah, wait until they meet lawyers. /s

    3. Re:Outrageous!! by habig · · Score: 2

      shh! Don't tell the anti-GMO people about this horrible trans-species genetic meddling, or Mother Nature will never hear the end of the protests.

    4. Re: Outrageous!! by Oswald+McWeany · · Score: 3, Interesting

      Bacteria have never cared what scientists think

      Actually, there is a lot of evidence that bacteria (especially gut bacteria) can influence WHAT we think. We're sentient beings, but we're also giant puppets controlled by bacteria too. Bacteria "care" what scientists think because they directly influence our hormones and send chemical signals to our brains to desire certain things.

      Care might be the wrong word because it implies a degree of sapience or at least emotion, but some bacteria are all about influencing our thoughts,

      --
      "That's the way to do it" - Punch
  3. Gene transfer risk by Anonymous Coward · · Score: 0

    I could see this working in a simple organism that has a high reproductive rate, like flies or algae, because mistakes that cause death aren't a problem for the local population. But in humans or other creatures that only reproduce a small number of times, genetic tinkering like this seems like it could either a) cause an awful lot of deaths, or b) on the conservative time, take ridiculously long to have any positive effect on our species. I'm assuming a useful gene transfer is very rare and harmful ones are more common. Bad assumption?
    In other words, I'm wondering in practice how larger species can benefit in a sustainable way from inter-species gene transfer.

    1. Re:Gene transfer risk by jellomizer · · Score: 2

      We suffer genetic mutations all the time. Usually if such a genetic tinkering causes a problem the few cells that got messed up die out, and are replaced with better working cells, or if they go haywire, and start reproducing like mad, then we get cancer, which causes an awful lot of deaths.

      Our genes also have a lot of useless stuff in it anyways. Evolution isn't Optimization. If the useless stuff doesn't kill us, then it gets passed to the next generation as useless stuff. So we may take some genes from bacteria and nothing will happen, because such changes doesn't effect anything useful

      --
      If something is so important that you feel the need to post it on the internet... It probably isn't that important.
    2. Re:Gene transfer risk by Gilgaron · · Score: 2

      In bacteria, they are more likely to intake loose genetic material if things are going poorly for them. Like if you're starving and you eat something sketchy because the worst that happens is you die which is going to happen soon regardless. In higher order animals it is only going to affect your offspring if the changes make it into the germ line cells, so even if it turns out we do uptake loose genetic material under certain conditions it is less likely to be something passed on, so the risk stays in the individual rather than the population.

    3. Re:Gene transfer risk by Oswald+McWeany · · Score: 2

      I'm assuming a useful gene transfer is very rare and harmful ones are more common. Bad assumption?
      In other words, I'm wondering in practice how larger species can benefit in a sustainable way from inter-species gene transfer.

      The majority of mutations have no noticeable effect. Mutations ARE more likely to be deleterious than beneficial. We're well balanced and "engineered" meat-machines. If you randomly take out a part from your car in the driveway and put a new part in it's place... chances are you've damaged your car... same with us.

      The worst mutations usually don't make it to birth, or even last long enough that the parents know they're pregnant. Every once in a while a Honda Fit gets retro-fitted with a Ferrari F1 engine though.

      --
      "That's the way to do it" - Punch
    4. Re:Gene transfer risk by Applehu+Akbar · · Score: 1

      This isn’t about mutation or cross breeding, but gene transfer from one species to another. This has now been established as common in the natural world.

  4. Plants, the whores of the terran biosphere by elrous0 · · Score: 1

    They'll just take it from anywhere.

    --
    SJW: Someone who has run out of real oppression, and has to fake it.
    1. Re:Plants, the whores of the terran biosphere by DigiShaman · · Score: 1

      pollen = air sperm.

      Inhale

      --
      Life is not for the lazy.
    2. Re:Plants, the whores of the terran biosphere by Anonymous Coward · · Score: 0

      We draw oxygen with pollen into a foamy mixture of gas and particles with our lungs and add some lubricating moisture to in the process to transfer it out. Guess what we have there?

  5. Evolution? Lamarck had it more right by Anonymous Coward · · Score: 0

    than Darwin.

  6. Or in the case of certain IT workers by Anonymous Coward · · Score: 0

    from whales

  7. Flesh eating lawyers? by sjbe · · Score: 3, Funny

    Yeah, wait until they meet lawyers.

    I'm pretty sure flesh eating lawyers are a real thing...

    1. Re:Flesh eating lawyers? by Oswald+McWeany · · Score: 1

      I'm pretty sure flesh eating lawyers are a real thing...

      And when they themselves break the law... some lawyers become "single-celled too!"

      --
      "That's the way to do it" - Punch
  8. They know they are there by Sqreater · · Score: 1

    But do they know how they got there? They are assuming that like genes necessarily came from bacteria, just as they are assuming that our DNA bits that we share with Neanderthals came from Neanderthals. They are assuming provenance from likeness. Prove it.

    --
    E Proelio Veritas.
    1. Re:They know they are there by Gilgaron · · Score: 1

      You can use stuff like GC content to tell where genes came from, the degeneracy of the genetic code means there are different sequences that can make identical proteins. https://en.wikipedia.org/wiki/... has a rundown. You're basically arguing that DNA tests for identity or paternity are invalid (there are weaknesses with those techniques as used in law enforcement, but mostly just due to the cost of doing it better).

    2. Re:They know they are there by Anonymous Coward · · Score: 0

      Presumably they are in actuality finding identical (not similar) genes that are widespread in one non-human species and only occasionally present in humans with a correlation between exposure to the non-human species that usually has that gene.

      For example, neandetal DNA is very common in humans who's ancestors lived in the part of the world that had Neandertals and absent from those who lived elsewhere. By far the least convoluted explanation is interbreeding with neandertals. For there to be some other source we have to posit a third species of which there is no archeological evidence.

  9. Check your privilege!!! by Anonymous Coward · · Score: 0

    Oh my, this is HORRIBLE!!!

    The 1%ers are TAKING from those poor lowly bacteria!

    Talk about punching down!!

    This is intolerable!!!!!!

    1. Re:Check your privilege!!! by Applehu+Akbar · · Score: 1

      Actually, it’s (scary organ music) appropriation!

  10. Re:Check your entitlement!!! by Anonymous Coward · · Score: 0

    I'm pretty sure that acquiring genes from a parasite makes people Democrats

  11. GMO by esperto · · Score: 1

    This is the reason the GMO scare craze is based completely on ignorance, the techniques used to modify organism are based on mechanisms that happen in nature, we didn't "invent" anything, just copied and added control on what is being modified, and every single organism is genetically modified, from bacteria to the blue whale, through out history of evolution snippets of DNA travel from one species to another, and without any control whatsoever, except that if the change is too bad the individual will die or not reproduce, we still have franken-tomatos even without human intervention.

  12. I, for one, welcome our new insect researcher ... by Anonymous Coward · · Score: 0

    overlords.

    Let's hope their language is not shaped by centuries of drunkards until the ambiguities and inconsistent pronunciation rules made it crippled and cumbersome for anything but the dumbest common denominator.

  13. Argument from ignorance by sjbe · · Score: 1

    This is the reason the GMO scare craze is based completely on ignorance

    Sort of. In many cases it is basically an argument from ignorance. Their argument is basically "we can't conclusively prove that nothing bad can happen therefore something bad must/will happen". It's the same sort of clumsy thinking we see in those people who see a UFO, forget what the U stands for, and therefore conclude that it "must be aliens from another planet".

    But people arguing against GMOs sometimes do so from the basis of ethical or economic issues (like patents) which are not necessarily ignorant arguments. There also are people arguing that what we are doing is fine but that we should pump the brakes a bit so we don't do things before we fully understand the likely consequences. Reasonable people can be cautious about GMOs without necessarily opposing them outright in a blind panic.

    1. Re:Argument from ignorance by Applehu+Akbar · · Score: 1

      “Pump the brakes a bit” is nowhere near the same thing as triumphantly advertising everything as No GMO. A Europe-like ban is the real aim of this whole labeling movement.

    2. Re:Argument from ignorance by Anonymous Coward · · Score: 0

      No, a Fair Market is the aim of this whole labeling movement. If consumers do not want to purchase GMO products (whether for the "right" reason or not), there is no market for these products. The producers of these products do not have a god-or-government given right to sell them; they need a market to consume them

  14. That's Odd by Anonymous Coward · · Score: 0

    John McCutcheon, a biologist at Montana State University in Missoula

    Last time I checked, Montana State University was in Bozeman and University of Montana was in Missoula.

  15. How much of it is 'your thoughts' if the bacteria by Anonymous Coward · · Score: 0

    How much of it is 'your thoughts' if bacteria was always there?

  16. There's fungus among us by mnemotronic · · Score: 1

    There's fungus among us. And malaria in the area.

    --
    The Russians have won. They have made the world a cesspool of distrust, greed, fear and hate.
  17. test needed by hdyoung · · Score: 1

    More testing is needed. Interesting hypothesis. Real purpose of this post - someone appears someone to be hunting my posts and modding them troll. I'm occasionally a tad troll-like I'll admit but I'm getting modded down on very reasonable posts. This is bait.

  18. Whoville MIA after misplaced meds by epine · · Score: 1

    '''Debashish Bhattacharya''', an evolutionary genomicist at Rutgers University in New Brunswick, New Jersey, and UD plant biochemist Andreas Weber took a closer look at a possible case of bacteria-to-eukaryote gene transfer that [William Martin, a biologist that concluded that there is no significant ongoing transfer of prokaryotic genes into eukaryotes, has challenged in 2015].

    Was this a test sentence deliberately crafted to release the blue smoke from Google Translate?

    If I came across this sentence in an article on Wikipedia, I wouldn't be dropping {{subst:test1}} onto the user's talk page, I'd be dropping a phone number to a mental health hotline.

  19. Whatever idiot wrote that head line by Anonymous Coward · · Score: 0

    does not understand direction. Or biology.