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Other Publications by Jennifer Biddle

 

Orsi W*, Edgcomb VP, Christman G, Biddle JF. 2013. Gene expression in the deep biosphere. Nature 499, 205-208

Orsi W*, Biddle JF, Edgcomb V. 2013. Deep Sequencing of Subseafloor Eukaryotic rRNA Reveals Active Fungi across Marine Subsurface Provinces. PloS One doi: 10.1371/journal.pone.0056335

Burgaud G, Woehlke S*, Redou V, Orsi W*, Beaudoin D, Barbier G, Biddle JF, Edgcomb V. 2013. Deciphering the presence and activity of fungal communities in marine sediments using a model estuarine system. Aquatic Microbial Ecology doi:10.3354/ame01638

MacGregor BJ, Biddle JF, Harbort C, Matthysse AG, Teske A. 2013. Sulfide oxidation, nitrate respiration, carbon acquisition, and electron transport pathways suggested by the draft genome of a single orange Guaymas Basin Beggiatoa (Cand. Maribeggiatoa) sp. filament.  Marine Genomics 11: 53-65

MacGregor BJ, Biddle JF, Siebert JR, StauntonE, Hegg EL, Matthysse AG, Teske A. 2013. Why orange Guaymas Basin Beggiatoa spp. are orange: Single-filament-genome-enabled identification of an abundant octaheme cytochrome with hydroxylamine oxidase, hydrazine oxidase and nitrite reductase activities. Applied and Environmental Microbiology 79:1183-1190

MacGregor BJ, Biddle JF, Teske A. 2013. Mobile elements in a single-filament orange Guaymas Basin Beggiatoa (“Candidatus Maribeggiatoa”) sp. draft genome: Evidence for genetic exchange with Cyanobacteria. Applied and Environmental Microbiology 79: 3974-3895

Orcutt BN, LaRowe DE, Biddle JF, Colwell FS, Glazer BT, Reese BK, Kirkpatrick JB, Lapham LL, Mlls HJ, Sylvan JB, Wankel SD, Wheat CG. 2013. Microbial activity in the deep biosphere: progress and prospects. Frontiers in Extreme Microbiology doi: 10.3389/fmicb.2013.00189

Biddle JF. 2013. Microbial eukaryotes: extending observations North. Frontiers in Extreme Microbiology doi: 10.3389/fmicb.2013.00010

Teske A, Biddle JF, Edgcomb VP, Schippers A. 2013. Deep subsurface microbiology: a guide to the research topic papers. Frontiers in Extreme Microbiology doi: 10.3389/fmicb.2013.00122

Flood BE, Bailey JV, Biddle JF. 2014. Horizontal gene transfer and the rock record: comparative genomics of phylogenetically distant bacteria that induce wrinkle structure formation in modern sediments. Geobiology doi: 10.1111/gbi.12072

Russell JA*, Brady AL, Cardman Z, Slater GF, Lim DSS, Biddle JF. 2014. Prokaryote populations of extant microbialites along a depth gradient in Pavilion Lake, British Columbia, Canada. Geobiology, in-press.

Edgcomb, V.P., Orsi, W., Biddle, J.F. 2013. Fungi in the marine subsurface. In: Microbial Life of the Deep Biosphere, J. Kallmeyer ed., DeGruyter Publishing. In press.

Biddle JF, Jungbluth SP, Lever MA, Rappe MS. 2013. Life in the oceanic crust. In: Microbial Life of the Deep Biosphere, J. Kallmeyer ed., DeGruyter Publishing. In press.

Teske A, Biddle JF, Lever MA. 2014. Genetic evidence of seafloor microbial communities. In: Developments in Marine Geology Vol 7: Earth and Life Processes Discovered from Subseafloor Environment, D. Coleman, ed. Elsevier. In press.

Luke J. McKay, Barbara J. MacGregor, Jennifer F. Biddle, Daniel B. Albert, Howard P. Mendlovitz, Daniel R. Hoer, Julius S. Lipp, Karen G. Lloyd, Andreas P. Teske (2012) Spatial heterogeneity and underlying geochemistry of phylogenetically diverse orange and white Beggiatoa mats in Guaymas Basin hydrothermal sediments. Deep Sea Res. 67:21-31.

Kyoko Kubo, Karen G. Lloyd, Jennifer F. Biddle, Rudolf Amann, Andreas Teske, Katrin Knittel (2012) Archaea of the Miscellaneous Crenarchaeotal Group (MCG) are abundant, diverse, and widespread in marine sediments. ISME J. 2012 1-17. doi:10.1038/ismej.2012.37

Amanda Martino, Matthew E. Rhodes, Jennifer F. Biddle, Leah D. Brandt, Lynn P. Tomsho, Christopher H. House (2012) Novel degenerate PCR method for whole genome amplification applied to Peru Margin (ODP leg 201) subsurface samples. Frontiers in Extreme Microbiology 3:17. doi:10.3389/fmicb.2012.00017.

Virginia P. Edgcomb, Jennifer F. Biddle (2012) Microbial eukaryotes in the marine subsurface? In: Cellular Origin, Life in Extreme Habitats and Astrobiology, Volume 21, edited by A.V. Altenbach, J.M. Bernhard and J. Seckback, Springer Science Business Media B.V.

Jennifer F. Biddle, Jason B. Sylvan, William J. Brazelton, Benjamin J. Tully, Katrina J. Edwards, Craig L. Moyer, John F. Heidelberg, William C. Nelson (2012) Prospects for the study of evolution in the deep biosphere. Frontiers in Extreme Microbiology 2:285. doi: 10.3389/fmicb.2011.00285.

Jennifer F. Biddle (2011) Metagenomics of the marine subsurface: The first glimpse from the Peru Margin, ODP Site 1229. In: Handbook of Molecular Microbial Ecology II. Edited by F.J. de Bruijn, Wiley Blackwell, New Jersey.

Jennifer F. Biddle, Zena Cardman, Howard Mendlovitz, Daniel B. Albert, Karen G. Lloyd, Antjue Boetius, Andreas Teske (2011) Anaerobic oxidation of methane at different temperature regimes in Guaymas Basin hydrothermal sediments. ISME J. 2011 1-14.

Jennifer F. Biddle, James Robert White, Andreas P. Teske, Christopher H. House (2011) Metagenomics of the subsurface Brazos-Trinity Basin (IODP Site 1320): comparison with other sediment and pyrosequenced metagenomes. ISME J. 5:1038-1047.

Karen G. Lloyd, Daniel B. Albert, Jennifer F. Biddle, Jeffrey P. Chanton, Oscar Pizarro, Andreas Teske (2010) Spatial structure and activity of sedimentary microbial communities underlying a Beggiatoa spp. mat in a Gulf of Mexico hydrocarbon seep. PLoS One 5(1):e8738.

Yu-Shih Lin, Jennifer F. Biddle, Julius S. Lipp, Beth N. Orcutt, Thomas Holler, Andreas Teske, Kai-Uwe Hinrichs (2010) Effect of storage conditions on archael and bacterial communities in subsurface marine sediments. Geomicrobiology Journal, 27(3):261-272.

Jennifer F. Biddle, Sorel Fitz-Gibbon, Stephan C. Schuster, Jean E. Brenchley, Christopher H. House (2008) Metagenomic signatures of the Peru Margin subseafloor biosphere show a genetically distinct environment. PNAS, 105(30):10583-10588.

Andreas Teske, Jennifer F. Biddle (2007) Analysis of deep subsurface microbial communities by functional genes and genomics. In: Links Between Geological Processes, Microbial Activities and Evolution of Life, edited by Y. Dilek, H. Furnes & K. Muehlenbachs, Springer Science B.V., Dordrecht, The Netherlands.

Jennifer F. Biddle, Julius S. Lipp, Mark A. Lever, Karen G. Lloyd, Ketil B. Sørensen, Rika Anderson, Helen F. Fredricks, Marcus Elvert, Timothy J. Kelly, Daniel P. Schrag, Mitchell L. Sogin, Jean E. Brenchley, Andreas Teske, Christopher H. House, Kai-Uwe Hinrichs (2006) Heterotrophic Archaea dominate sedimentary subsurface ecosystems off Peru.

  • Single-filament genome-enabled indentification of an abundant octaheme cytochrome with hydroxylamine oxidase, hydrazine oxidase and nitrite reductase activities.
  • Deep sequencing of subseafloor eukaryotic rRNA reveals active Fungi across marine subsurface provinces.
  • Gene expression in the deep biosphere
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