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Metagenomics

Genome and secretome analysis of the hemibiotrophic fungal pathogen, Moniliophthora roreri , which causes frosty pod rot disease of cacao: mechanisms of the biotrophic and necrotrophic phases (2014) L.W. Meinhardt, G.G. Costa, D.P. Thomazella, P. Teixeira, M.F. Carazzolle, S.C. Schuster , J.E. Carlson, M.J. Guiltinan, P. Mieczkowski, A. Farmer, T. Ramaraj, J. Crozier, R.E. Davis, J. Shao, R.L. Melnick, G.A. Pereira, B.A. Bailey. BMC Genomics 15(1):164. [Epub 2014 February 27] [ pdf

Genome Sequence of the Thermophilic Cyanobacterium Thermosynechococcus sp. Strain NK55a. (2014) S. Stolyar, Z. Liu, V. Thiel, L.P. Tomsho, N. Pinel, W.C. Nelson, S.R. Lindemann, M.F. Romine, S. Haruta, S.C. Schuster , D.A. Bryant, J.K. Fredrickson. Genome Announcements 2(1):e01060-13 / doi:10.1128/genomeA.01060-13. [ pdf ]

Architecture and evolution of a minute plant genome (2013) E. Ibarra-Laclette, E. Lyons, G. Hernández-Guzmán, C.A. Pérez-Torres, L. Carretero-Paulet, T.H. Chang, T. Lan, A.J. Welch, M.J. Abraham Juárez, J. Simpson, A. Fernández-Cortés, M. Arteaga-Vázquez, E. Góngora-Castillo, G. Acevedo-Hernández, S.C. Schuster , H. Himmelbauer, A.E. Minoche, S. Xu, M. Lynch, A. Oropeza-Aburto, S.A. Cervantes-Pérez, M.J. Ortega-Estrada, J.I. Cervantes-Luevano, T.P. Michael, T. Mockler, D. Bryant, A. Herrera-Estrella, V.A. Albert, L. Herrera-Estrella. Nature 498(7452):94-98 / doi: 10.1038/nature12132. [Epub 2013 May 12] [ pdf ]

Genome of the Haloarchaeon Natronomonas moolapensis , a neutrophilic member of a previously haloalkaliphilic genus (2013) M.L. Dyall-Smith, F. Pfeiffer, T. Oberwinkler, K. Klee, M. Rampp, P. Palm, K. Gross, S.C. Schuster , D. Oesterhelt. Genome Announcements 1(2):e00095-13 / doi 10.1128/genomeA.00095-13. [ pdf ]

Draft genome sequence of strain HIMB100, a cultured representative of the SAR116 clade of marine Alphaproteobacteria (2011) J. Grote, C. Bayindirli, K. Bergauer, P. Carpintero de Moraes, H. Chen, L. D’Ambrosio, B. Edwards, B. Fernández-Gómez, M. Hamisi, R. Logares, D. Nguyen, Y. M. Rii, E. Saeck, C. Schutte, B. Widner, M. J. Church, G.F. Steward, D.M. Karl, E.F. DeLong, J.M. Eppley, S.C. Schuster , N.C. Kyrpides, M.S. Rappé. Standards in Genomic Sciences 5(3):269-78. [Epub 2011 December 23] [ pdf ]

The mitochondrial genome of Moniliophthora roreri , the frosty pod rot pathogen of cacao (2012) G.G.L. Costa, O.G. Cabrera, R.A. Tiburcio, F.J. Medrano, M.F. Carazzolle, D.P. Thomazella, S.C. Schuster , J.E. Carlson, M.J. Guiltinan, B.A. Bailey, P. Mieczkowski, G.A. Pereira, L.W. Meinhardt. Fungal Biology 116(5):551-62 / doi: 10.1016/j.funbio.2012.01.008. [Epub 2012 February 15] [ pdf ]

Chestnut resistance to the blight disease: insights from transcriptome analysis (2012) A. Barakat, M. Staton, C.H. Cheng, J. Park, N. Buang, N.B. Yassin, S. Ficklin, C.C. Yeh, F. Hebard, K. Baier, W. Powell, S.C. Schuster , N. Wheeler, A. Abbott, J.E. Carlson, R. Sederoff. BMC Plant Biology 12(1):38.

Polymorphic integrations of an endogenous gammaretrovirus in the mule deer genome (2012/11) D. Elleder, O. Kim, A. Padhi, J. Bankert, I. Simeonov, S.C. Schuster , N.E. Wittekindt, S. Motameny, M. Poss. Journal of Virology 86(5):2787-96. [Epub 2011 December 21]

Metagenomic profile of the bacterial communities associated with Ixodes ricinus ticks (2011) G. Carpi, F. Cagnacci, N.E. Wittekindt, F. Zhao, J. Qi, L.P. Tomsho, D.I. Drautz, A. Rizzoli, S.C. Schuster . PLoS ONE 6(10): e25604 / doi:10.1371.

Complete genome of Candidatus Chloracidobacterium thermophilum, a chlorophyll-based photoheterotroph belonging to the phylum Acidobacteria (2012/11) A.M. Garcia Costas, Z. Liu, L.P. Tomsho, S.C. Schuster , D.M. Ward, D.A. Bryant. Environmental Microbiology 14(1):177-190. [Epub 2011 September 27]

Metatranscriptomic analyses of chlorophototrophs of a hot-spring microbial mat (2011) Z. Liu, C.G. Klatt, J.M. Wood, D.B. Rusch, M. Ludwig, N.E. Wittekindt, L.P. Tomsho, S.C. Schuster , D.M. Ward, D.A. Bryant. ISME Journal 5(8):1279-90 / doi: 10.1038/ismej.2011.37. [Epub 2011 June 23]

Ancestral polyploidy in seed plants and angiosperms (2011) Y. Jiao, N.J. Wickett, S. Ayyampalayam, A. Chanderbali, L. Landherr, P.E. Ralph, L.P. Tomsho, Y. Hu, H. Liang, P.S. Soltis, D.E. Soltis, S.W. Clifton, S.E. Schlarbaum, S.C. Schuster , H. Ma, J. Leebens-Mack, C.W. dePamphilis. Nature 473(7345):97-100. [Epub 2011 April 10]

The genome of Theobroma cacao (2011, 2010) X. Argout, J. Salse, J.M. Aury, G. Droc, J. Gouzy, M. Allegre, C. Chaparro, T. Legavre, M. Guiltinan, S. Maximova, M. Abrouk, F. Murat, O. Fouet, J. Poulain, M. Ruiz, Y. Roguet, M. Rodier-Goud, J.F. Barbosa-Neto, F. Sabot, D. Kudrna, J.S.S. Ammiraju, S.C. Schuster , J.E. Carlson, E. Sallet, T. Schiex, A. Dievart, M. Kramer, L. Gelley, Z. Shi, A. Bérard, C. Viot, M. Boccara, A.M. Risterucci, V. Guignon, X. Sabau, M.J. Axtell, Ma Z., Zhang Y., S. Brown, M. Bourge, W. Golser, X. Song, D. Clement, R. Rivalan, M. Tahi, J.M. Akaza, B. Pitollat, K. Gramacho, A. D’Hont, D. Brunel, D. Infante, I. Kebe, P. Costet, R. Wing, W.R. McCombie, E. Guiderdoni, F. Quetier, O. Panaud, P. Wincker, S. Sidibe-Bocs, C. Lanaud. Nature Genetics 43(2):101-108. [Epub 2010 December 26]

Nodeomics: Meta-transcriptomics of a host biome (2010) N.E. Wittekindt, A. Padhi, S.C. Schuster , J. Qi, F. Zhao, L.P. Tomsho, L. Kasson, M. Packard, P. Cross, M. Poss. PLoS ONE 5(10): e13432 / doi:10.1371/journal.pone.0013432.

A metagenomic study of deeply buried marine sediments: uncovering an archaeal world (2008) J.F. Biddle, S. Fitz-Gibbon, S.C. Schuster , J.E. Brenchley, C.H. House. Proceedings of the National Academy of Sciences of the United States of America , 105(30):10583-88. [Epub 2008 July 23]

An ice-adapted bacterium from the Vostok ice core (2008) J.A. Raymond, B.C. Christner, S.C. Schuster . Extremophiles 12(5):713-17. [Epub 2008 July 12]

Simultaneous assessment of soil microbial community structure and function through analysis of the meta-transcriptome (2008) T. Urich, A. Lanzen, J. Qi, D.H. Huson, C. Schleper, S.C. Schuster . PLoS ONE 3(6):e2527. [Epub 2008 June 25]

Nucleosome organization in the Drosophila genome (2008) T.N. Mavrich, I.P. Ioshikhes, B.J. Venters, C. Jang, L.P. Tomsho, J. Qi, S.C. Schuster , I. Albert, B.F. Pugh. Nature 453(7193):358-62. [Epub 2008 April 13]

Measuring microbial gene expression in the surface oceans (2008) J. Frias-Lopez, Y. Shi, X. Tyson, X. Coleman, S.C. Schuster , S.W. Chisholm, E.F. DeLong. Proceedings of the National Academy of Sciences of the United States of America , 105(10):3805-10. [Epub 2008 March 3]

Archaea predominate among ammonia-oxidizing prokaryotes in soils (2006) S. Leininger, T. Urich, M. Schloter, L. Schwark, Ji Qi, G.W. Nicol, J.I. Prosser, S.C. Schuster , C. Schleper. Nature 442(7104):806-09.

Novel genes for nitrite reductase and Amo-related proteins indicate a role of uncultivated mesophilic crenarchaeota in nitrogen cycling (2005) A.H. Treusch, S. Leininger, A. Kletzin, S.C. Schuster , H.-P. Klenk, C. Schleper. Environmental Microbiology 7(12):1985-95.

Characterization of large-insert DNA libraries from soil for environmental genomic studies of Archaea. (2004) A.H. Treusch, A. Kletzin, G. Raddatz, T. Ochsenreiter, A. Quaiser, G. Meurer, S.C. Schuster , C. Schleper. Environmental Microbiology 6(9):970-80.

Mutations in cadherin 23 affect tip links in zebrafish sensory hair cells. (2004) C. Söllner, G.J. Rauch, J. Siemens, R. Geisler, S.C. Schuster , U. Müller, T. Nicolson; Tübingen 2000 Screen Consortium. Nature 428(6986):955-9. [Epub 2004 March 31]

Acidobacteria form a coherent but highly diverse group within the bacterial domain: Evidence from environmental genomics (2003) A. Quaiser, T. Ochsenreiter, G. Raddatz, S.C. Schuster , A.H. Treusch, J. Eck, C. Schleper. Molecular Microbiology 50(2):563-75.

Proteome analysis of the thermoreceptive pit membrane of the western diamondback rattlesnake Crotalus atrox (2003) H. Zischka, H. Keller, J. Kellermann, C. Eckerskorn, S.C. Schuster . Proteomics 3(1):78-86.

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