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Items: 24

1.

Comparisons of Shewanella strains based on genome annotations, modeling, and experiments.

Ong WK, Vu TT, Lovendahl KN, Llull JM, Serres MH, Romine MF, Reed JL.

BMC Syst Biol. 2014 Mar 12;8:31. doi: 10.1186/1752-0509-8-31.

2.

Live cell chemical profiling of temporal redox dynamics in a photoautotrophic cyanobacterium.

Sadler NC, Melnicki MR, Serres MH, Merkley ED, Chrisler WB, Hill EA, Romine MF, Kim S, Zink EM, Datta S, Smith RD, Beliaev AS, Konopka A, Wright AT.

ACS Chem Biol. 2014 Jan 17;9(1):291-300. doi: 10.1021/cb400769v. Epub 2013 Nov 6.

PMID:
24168666
3.

Changes in translational efficiency is a dominant regulatory mechanism in the environmental response of bacteria.

Taylor RC, Webb Robertson BJ, Markillie LM, Serres MH, Linggi BE, Aldrich JT, Hill EA, Romine MF, Lipton MS, Wiley HS.

Integr Biol (Camb). 2013 Nov;5(11):1393-406. doi: 10.1039/c3ib40120k. Epub 2013 Sep 30.

4.

Detection of transcriptional triggers in the dynamics of microbial growth: application to the respiratorily versatile bacterium Shewanella oneidensis.

Beg QK, Zampieri M, Klitgord N, Collins SB, Altafini C, Serres MH, Segrè D.

Nucleic Acids Res. 2012 Aug;40(15):7132-49. doi: 10.1093/nar/gks467. Epub 2012 May 25.

5.

Large-scale comparative phenotypic and genomic analyses reveal ecological preferences of shewanella species and identify metabolic pathways conserved at the genus level.

Rodrigues JL, Serres MH, Tiedje JM.

Appl Environ Microbiol. 2011 Aug;77(15):5352-60. doi: 10.1128/AEM.00097-11. Epub 2011 Jun 3.

6.

Shewanella knowledgebase: integration of the experimental data and computational predictions suggests a biological role for transcription of intergenic regions.

Karpinets TV, Romine MF, Schmoyer DD, Kora GH, Syed MH, Leuze MR, Serres MH, Park BH, Samatova NF, Uberbacher EC.

Database (Oxford). 2010 Jul 6;2010:baq012. doi: 10.1093/database/baq012.

7.

Evolution by leaps: gene duplication in bacteria.

Serres MH, Kerr AR, McCormack TJ, Riley M.

Biol Direct. 2009 Nov 23;4:46. doi: 10.1186/1745-6150-4-46.

8.

Comparative systems biology across an evolutionary gradient within the Shewanella genus.

Konstantinidis KT, Serres MH, Romine MF, Rodrigues JL, Auchtung J, McCue LA, Lipton MS, Obraztsova A, Giometti CS, Nealson KH, Fredrickson JK, Tiedje JM.

Proc Natl Acad Sci U S A. 2009 Sep 15;106(37):15909-14. doi: 10.1073/pnas.0902000106. Epub 2009 Sep 1.

9.

Conserved synteny at the protein family level reveals genes underlying Shewanella species' cold tolerance and predicts their novel phenotypes.

Karpinets TV, Obraztsova AY, Wang Y, Schmoyer DD, Kora GH, Park BH, Serres MH, Romine MF, Land ML, Kothe TB, Fredrickson JK, Nealson KH, Uberbacher EC.

Funct Integr Genomics. 2010 Mar;10(1):97-110. doi: 10.1007/s10142-009-0142-y. Epub 2009 Oct 3.

10.

Protein families reflect the metabolic diversity of organisms and provide support for functional prediction.

Nahum LA, Goswami S, Serres MH.

Physiol Genomics. 2009 Aug 7;38(3):250-60. doi: 10.1152/physiolgenomics.90244.2008. Epub 2009 Jun 2.

PMID:
19491149
11.

Towards environmental systems biology of Shewanella.

Fredrickson JK, Romine MF, Beliaev AS, Auchtung JM, Driscoll ME, Gardner TS, Nealson KH, Osterman AL, Pinchuk G, Reed JL, Rodionov DA, Rodrigues JL, Saffarini DA, Serres MH, Spormann AM, Zhulin IB, Tiedje JM.

Nat Rev Microbiol. 2008 Aug;6(8):592-603. doi: 10.1038/nrmicro1947. Epub 2008 Jul 7. Review.

PMID:
18604222
12.

Identification of diverse carbon utilization pathways in Shewanella oneidensis MR-1 via expression profiling.

Driscoll ME, Romine MF, Juhn FS, Serres MH, McCue LA, Beliaev AS, Fredrickson JK, Gardner TS.

Genome Inform. 2007;18:287-98.

PMID:
18546496
13.
14.

Escherichia coli K-12: a cooperatively developed annotation snapshot--2005.

Riley M, Abe T, Arnaud MB, Berlyn MK, Blattner FR, Chaudhuri RR, Glasner JD, Horiuchi T, Keseler IM, Kosuge T, Mori H, Perna NT, Plunkett G 3rd, Rudd KE, Serres MH, Thomas GH, Thomson NR, Wishart D, Wanner BL.

Nucleic Acids Res. 2006 Jan 5;34(1):1-9. Print 2006.

15.
17.

Global profiling of Shewanella oneidensis MR-1: expression of hypothetical genes and improved functional annotations.

Kolker E, Picone AF, Galperin MY, Romine MF, Higdon R, Makarova KS, Kolker N, Anderson GA, Qiu X, Auberry KJ, Babnigg G, Beliaev AS, Edlefsen P, Elias DA, Gorby YA, Holzman T, Klappenbach JA, Konstantinidis KT, Land ML, Lipton MS, McCue LA, Monroe M, Pasa-Tolic L, Pinchuk G, Purvine S, Serres MH, Tsapin S, Zakrajsek BA, Zhu W, Zhou J, Larimer FW, Lawrence CE, Riley M, Collart FR, Yates JR 3rd, Smith RD, Giometti CS, Nealson KH, Fredrickson JK, Tiedje JM.

Proc Natl Acad Sci U S A. 2005 Feb 8;102(6):2099-104. Epub 2005 Jan 31.

18.

GenProtEC: an updated and improved analysis of functions of Escherichia coli K-12 proteins.

Serres MH, Goswami S, Riley M.

Nucleic Acids Res. 2004 Jan 1;32(Database issue):D300-2.

19.

A functional update of the Escherichia coli K-12 genome.

Serres MH, Gopal S, Nahum LA, Liang P, Gaasterland T, Riley M.

Genome Biol. 2001;2(9):RESEARCH0035. Epub 2001 Aug 20.

20.

MultiFun, a multifunctional classification scheme for Escherichia coli K-12 gene products.

Serres MH, Riley M.

Microb Comp Genomics. 2000;5(4):205-22.

PMID:
11471834
21.

Interim report on genomics of Escherichia coli.

Riley M, Serres MH.

Annu Rev Microbiol. 2000;54:341-411. Review.

PMID:
11018132
22.

An ultrasensitive competitive binding assay for the detection of toxins affecting protein phosphatases.

Serres MH, Fladmark KE, Døskeland SO.

Toxicon. 2000 Mar;38(3):347-60.

PMID:
10669024
23.

Sensitive detection of apoptogenic toxins in suspension cultures of rat and salmon hepatocytes.

Fladmark KE, Serres MH, Larsen NL, Yasumoto T, Aune T, Døskeland SO.

Toxicon. 1998 Aug;36(8):1101-14.

PMID:
9690778
24.

Endogenous ADP-ribosylation of proteins in Mycobacterium smegmatis.

Serres MH, Ensign JC.

J Bacteriol. 1996 Oct;178(20):6074-7.

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