A visiting student at my lab Lea Benedicte Skov Hansen will be leading our “metaomics” discussion group this week. We will be discussing a combination of metatranscriptomics and biogeography and the papers of the week are:
Microbial community gene expression in ocean surface waters. Frias-Lopez J, Shi Y, Tyson GW, Coleman ML, Schuster SC, Chisholm SW, Delong EF. Proc Natl Acad Sci U S A. 2008 Mar 11;105(10):3805-10. Epub 2008 Mar 3.
Some related papers of potential interest from DeLong
- Comparative metagenomic analysis of a microbial community residing at a depth of 4,000 meters at station ALOHA in the North Pacific subtropical gyre.
- Microbial community transcriptomes reveal microbes and metabolic pathways associated with dissolved organic matter turnover in the sea.
- Integrated metatranscriptomic and metagenomic analyses of stratified microbial assemblages in the open ocean.
- Microbial metatranscriptomics in a permanent marine oxygen minimum zone.
- Community transcriptomics reveals universal patterns of protein sequence conservation in natural microbial communities.
We are also discussing:
Drivers of bacterial beta-diversity depend on spatial scale. Martiny JB, Eisen JA, Penn K, Allison SD, Horner-Devine MC.
Proc Natl Acad Sci U S A. 108(19):7850-4. (NOTE I am an author on this one – but the meat of the ideas/work was done by Jen Martiny, Claire Horner-Devine and others).
- Global patterns of bacterial beta-diversity in seafloor and seawater ecosystems.
- Patterns of fungal diversity and composition along a salinity gradient.
- The biogeography of ammonia-oxidizing bacterial communities in soil.
- Phylogenetic clustering and overdispersion in bacterial communities.
- Microbial biogeography: putting microorganisms on the map.
- An ecological perspective on bacterial biodiversity.
- A taxa-area relationship for bacteria.
- A comparison of taxon co-occurrence patterns for macro- and microorganisms.