Posting Notes from NAS Microbes and Health Meeting here on my blog

I am going to be posting notes on the NAS Meeting on Microbes and Health Here

http://friendfeed.com/treeoflife/9ab60359/dennis-kasper-from-harvard-brigham-is-now-up-at?embed=1

http://friendfeed.com/treeoflife/21a50e16/beta-version-of-qiime-software-from-rob-knight?embed=1

http://friendfeed.com/treeoflife/afe12ea8/now-speaking-at-nasmh-gunnar-hanson-on-mucus?embed=1

http://friendfeed.com/treeoflife/6dde23dc/getting-ready-for-david-mills-from-ucdavis-to?embed=1

http://friendfeed.com/treeoflife/501f92f3/ruth-ley-at-nasmh-talking-about-development-of?embed=1

http://friendfeed.com/treeoflife/4fee5fdd/karen-guillemin-from-u-orgeon-is-now-talking-at?embed=1

http://friendfeed.com/treeoflife/7e249d3d/michiel-kleerebezem-is-talking-at-nasmh-about?embed=1

http://friendfeed.com/treeoflife/07aae71d/david-relman-from-stanford-now-talking-about?embed=1

http://friendfeed.com/treeoflife/5f1eb001/forest-rohwer-now-talking-at-nasmh-meeting-on?embed=1

http://friendfeed.com/treeoflife/96b1c26d/may-shift-from-twitter-to-friendfeed-for?embed=1

Elaine Holmes at #NASMH studying metabolomics & microbes vs. human hypertension & BMI & type II diabetes – strong IDing signals

Vaughan at #NASMH using “Simulator of the Human Intestinal Microbial Ecosystem” aka SHIME Reactor

@DavidSela There goes my 30 minutes of twitter fame …

Vaughan at #NASMH performing human ‘intervention study’ using tea & grape/wine polyphenols – each person is their own control

Keijser at #NASMH using microarray to survey rRNAs from oral samples – calls this the “OC” chip

Elaine Holmes #NASMH “dosed up post docs w/ Chamomile tea” & compared metabolites & microbes (hard to prevent EToH consumption though)

Elaine Vaughan from UNILEVER at #NASMH discussing bioconversion of dietary polyphenols by gut microbiota

RT @Scitable Cucumber genome published http://www.eurekalert.org/pub_rel… Guide to pumpkin, melon and plant vascular system #UCDavis

Bart Keijser at #NASMH talking about exploring oral microbiota in kids – using traveling “dental bus” – every kids nightmare

Keijser at #NASMH – w/ array get correlations betw. oral health status & certain organisms – these may be new targets for intervention

Vaughan at #NASMH looking at polyphenol metabolites from grape/wine extract & black tea – steps by microbiota vary greatly

Elaine Holmes at #NASMH trying to correlate specific metabolites w/ specific organisms – very difficult

Keijser at #NASMH using 454 rRNA sequencing to compare oral microbiota over time in permanent vs. “deciduous” teeth

Elaine Holmes at #NASMH is talking about metabolomics of microbes – see here home page here http://www1.imperial.ac.uk/medicin…
Monday from Twitter – Comment – Share – Edit

Elaine Holmes at #NASMH is talking about metabolomics of microbes – see here home page here http://www1.imperial.ac.uk/medicin…

Elaine Holmes at #NASMH looking at metabolites & microbes in model of bariatric surgery in rats

Elaine Holmes at #NASMH looking at metabolic profiles in different ethnic groups re; obesity epidemic

Elaine Holmes at #NASMH – using metabolomics of faecal H20 to compare normal & vancomycin treated mice

Elaine Holmes at #NASMH discussing study infecting germ free mice with microbiota from human babies http://www.nature.com/msb…

Elaine Holmes at #NASMH – metabolomics of urine from rats gives insight into gut microbiota (very cool)

Elaine Holmes at #NASMH – metabolomics of gnotobiotic (aka germ free) mice w/ and w/o colonization by microbes

R. Knight #NASMH discussing ecological “convergence” in microbial communities species assemblages

R. Knight #NASMH showing amazing study of microbes all over people’s bodies (27 or so locations)

R. Knight #NASMH – comparison of mammal gut communities shows clustering by diet

R. Knight #NASMH “much as we love rRNA at Boulder we accept that we have to look at other parts of the genome”

R. Knight #NASMH – deep sequencing gives us samples of rare biosphere – though unclear what these rare organisms do

R. Knight #NASMH using 454 sequencing to survey microbial communities – expensive but saves money in long run

Knight #NASMH – UNIFRAC comparison of all communities suggests vertebrate gut communities are very unique

Getting reads for my talk at #NASMH

Knight at #NASMH says “hierarchical clustering as w/ microarrays” -good 2C my brother’s work referred this way http://www.pnas.org/content…

Rob Knight at #NASMH discussing how UNIFRAC uses tree of life as organizing theme http://bmf2.colorado.edu/unifrac…

N. Moran #NASMH – aphid defense against parasitoids by H. defensa due to phage encoded toxins

Rob Knight – microbiome is good for personalized medicine b/c there is much variation between people

Rob Knight #NASMH discussing how van Leeuwenkoek was first to look at “Human Microbiome” using tooth scrapings

N. Moran #NASMH – many symbionts on border between bacteria & organelle – though more on the bacteria side

N. Moran #NASMH aphid resistance to parasitoid wasps due to presence of facultative symbiont H. defensa http://www.pnas.org/content…

# Rob Knight from CU-Boulder talking at #NASMH on 16s rRNA “enlightenment”

R. Knight #NASMH – was a major need for methods to compare rRNA data from different microbial communities

N. Moran #NASMH summary: symbioses major force in evolution, source of adaptation in changing envir, source of host constraints

N. Moran #NASMH comparing symbiont DNA repair genes: all missing some, some missing all, leads to incr. mutation rate & DNA biases

N. Moran #NASMH – once endosymbionts lose genes – never coming back b/c no lateral transfer – has profound effects on host ecology

R. Knight at #NASMH says next generation sequencing helps saves toothpicks previously used for colony picking

N. Moran #NASMH – accidental selection in lab for symbionts to lose heat shock response – see #PLoS Bio http://www.plosbiology.org/article…)

N. Moran #NASMH: organisms w/ small genomes lose non essential genes & also useful genes by drift b/c population sizes low

N. Moran #NASMH aphid resistance to parasitoid wasps due to presence of facultative symbiont H. defensa http://www.pnas.org/content…

# Rob Knight from CU-Boulder talking at #NASMH on 16s rRNA “enlightenment”

R. Knight #NASMH – was a major need for methods to compare rRNA data from different microbial communities

N. Moran #NASMH summary: symbioses major force in evolution, source of adaptation in changing envir, source of host constraints

N. Moran #NASMH comparing symbiont DNA repair genes: all missing some, some missing all, leads to incr. mutation rate & DNA biases

N. Moran #NASMH – once endosymbionts lose genes – never coming back b/c no lateral transfer – has profound effects on host ecology

Watching Nancy Moran, 1 of my favorite scientists, talk on symbioses at NAS Microbes&Health mtg (#NASMH) http://www.nasonline.org/site…

Nancy Moran at #NASMH: bacteria are incredibly diverse & plastic whereas animals are not so plastic & need some metabolic help

N. Moran #NASMH: in many symbioses host & symbiont phylogenetic trees are congruent -must be due to ancient associations

Nancy Moran defines symbiosis as I do: “members of more than 1 genetic lineage associate closely, often for mutual benefit” #NASMH

Nancy Moran: studies of symbionts used to be very hard b/c most cannot be cultured – molecular methods have revolutionized studies #NASMH

Nancy Moran is talking about symbioses

SHowing rRNA tree of life

Bacteria very diverse – in many ways – and very plastic and dynamic

Animals do not do this much

Essential roles of symbionts in animals – many examples

Giving props to Paul Buchner who documented associated involving bacteria buyt had not molecular methods and no culturing

Author: Jonathan Eisen

I am an evolutionary biologist and a Professor at U. C. Davis. (see my lab site here). My research focuses on the origin of novelty (how new processes and functions originate). To study this I focus on sequencing and analyzing genomes of organisms, especially microbes and using phylogenomic analysis

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