Meets Thursdays, 2:30-3:30 PM, Starr 209 (2nd floor classroom), unless otherwise stated.

MBL Micro-Eco Discussion Group, Spring 2010


January 14 Julie Huber

Casey Hubert, Alexander Loy, Maren Nickel, Carol Arnosti, Christian Baranyi, Volker Brüchert, Timothy Ferdelman, Kai Finster, Flemming Mønsted Christensen, Júlia Rosa de Rezende, Verona Vandieken, Bo Barker Jørgensen. 2009. A Constant Flux of Diverse Thermophilic Bacteria into the Cold Arctic Seabed. Science. 325: 1541-1544.



January 21, Michele Bahr

William J. Brazelton, Kristin A. Ludwig, Mitchell L. Sogin, Ekaterina N. Andreishcheva, Deborah S. Kelley,
Chuan-Chou Shen, R. Lawrence Edwards, and John A. Baross. (2010) Archaea and bacteria with surprising microdiversity show shifts in dominance over 1,000-year time scales in hydrothermal chimneys



January 28 Stefan Sievert (and roundtable)

Ana Beloqui, María-Eugenia Guazzaroni, Florencio Pazos, José M. Vieites, Marta Godoy, Olga V. Golyshina, Tatyana N. Chernikova, Agnes Waliczek, Rafael Silva-Rocha, Yamal Al-ramahi, Violetta La Cono, Carmen Mendez, José A. Salas, Roberto Solano, Michail M. Yakimov, Kenneth N. Timmis, Peter N. Golyshin, Manuel Ferrer. (2009) Reactome Array: Forging a Link Between Metabolome and Genome. Science 326: 252-257

http://www.sciencemag.org/cgi/reprint/326/5950/252.pdf (text)

Science editorial expression of concern

F1000 comments

Discussion of the concern at ACS.org


February 4, Jessica Mark Welch

Andrew L. Goodman, Nathan P. McNulty, Yue Zhao, Douglas Leip, Robi D. Mitra, Catherine A. Lozupone,
Rob Knight, and Jeffrey I. Gordon. (2009) Identifying Genetic Determinants Needed to Establish a Human Gut Symbiont in Its Habitat. Cell Host & Microbe 6: 279–289


February 11 -- Ecosystems retreat, so no MicroEco this week


February 18 -- School Break and Falmouth Science Fair Judging, so no MicroEco this week


February 25 -- Zoe Cardon, Sheri Simmons, and Jessica Mark Welch

Discussion of DOE grant submitted last fall exploring carbon sequestration in soils, using genomic, combinatorial imaging (FISH), X-ray tomography (soil microstructure), and ecosystem (C-sequestration) "process" measures.


March 4, Julie Smith

Kristina L. Hillesland and David A. Stahl. (2010) Rapid evolution of stability and productivity at the origin of a microbial mutualism. PNAS 107(5): 2129


March 11, John Hobbie

M. Bue´e, M. Reich, C. Murat, E. Morin, R. H. Nilsson, S. Uroz and F. Martin. (2009) 454 Pyrosequencing analyses of forest soils reveal an unexpectedly high fungal diversity.  New Phytologist 184: 449-456.

(Supplementary document with tables)


March 18, Angus Angermeyer

Qin et al. (2010) A human gut microbial gene catalogue established by metagenomic sequencing. Nature 464, 59-65| doi:10.1038/nature08821



March 25 -- No meeting (conflict with WHOI event)


April 1, Joe Vallino

Fuhrman, J. (2009) Microbial community structure and its functional implications. Nature 459:193-199.


April 8, Jeremy Rich

Ettwig et al. (2010) Nitrite-driven anaerobic methane oxidation by oxygenic bacteria. Nature, 543-550.



April 15, Emelia DeForce

See e-mail for link to manuscript draft!

Effect of land-use on potential ammonia-oxidizing crenarchaeal communities in Costa Rican tropical soils
Emelia A. DeForce, Doris Nabikejje, Cornelia Wuchter, Stefan M. Sievert, Michael P. Shiaris

To be submitted to FEMS Microbiology Ecology


April 22, Zoe Cardon

Gage, D.J., Herron, P.M., Arango Pinedo, C., and Cardon, Z.G. (2008) Live reports from the soil grain – the promise and challenge of microbiosensors. Functional Ecology 22: 983-989.


April 29, Julie Huber

Tamames et al. (2010) Environmental distribution of prokaryotic taxa. BMC Microbiology 10:85


May 6, Yuko Hasigawa

Louis et al. (2010) Diversity of human colonic butyrate-producing bacteria revealed by analysis of the butyryl-CoA:acetate CoA-transferase gene. Environmental Microbiology (2010) 12(2), 304–314


May 13, Sheri Simmons

Zhou JZ, Kang S, Schadt CW, et al. (2008) Spatial scaling of functional gene diversity across various microbial taxa. PNAS 105: 7768-7773

Available here  http://www.pnas.org/content/105/22/7768.full.pdf+html