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Items: 1 to 50 of 374

1.

Nitrogen fixation in a landrace of maize is supported by a mucilage-associated diazotrophic microbiota.

Van Deynze A, Zamora P, Delaux PM, Heitmann C, Jayaraman D, Rajasekar S, Graham D, Maeda J, Gibson D, Schwartz KD, Berry AM, Bhatnagar S, Jospin G, Darling A, Jeannotte R, Lopez J, Weimer BC, Eisen JA, Shapiro HY, Ané JM, Bennett AB.

PLoS Biol. 2018 Aug 7;16(8):e2006352. doi: 10.1371/journal.pbio.2006352. eCollection 2018 Aug.

2.

Corrigendum: Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea.

Bowers RM, Kyrpides NC, Stepanauskas R, Harmon-Smith M, Doud D, Reddy TBK, Schulz F, Jarett J, Rivers AR, Eloe-Fadrosh EA, Tringe SG, Ivanova NN, Copeland A, Clum A, Becraft ED, Malmstrom RR, Birren B, Podar M, Bork P, Weinstock GM, Garrity GM, Dodsworth JA, Yooseph S, Sutton G, Glöckner FO, Gilbert JA, Nelson WC, Hallam SJ, Jungbluth SP, Ettema TJG, Tighe S, Konstantinidis KT, Liu WT, Baker BJ, Rattei T, Eisen JA, Hedlund B, McMahon KD, Fierer N, Knight R, Finn R, Cochrane G, Karsch-Mizrachi I, Tyson GW, Rinke C; Genome Standards Consortium, Lapidus A, Meyer F, Yilmaz P, Parks DH, Eren AM, Schriml L, Banfield JF, Hugenholtz P, Woyke T.

Nat Biotechnol. 2018 Jul 6;36(7):660. doi: 10.1038/nbt0718-660a. No abstract available.

PMID:
29979671
3.

Effects of preservation method on canine (Canis lupus familiaris) fecal microbiota.

Horng KR, Ganz HH, Eisen JA, Marks SL.

PeerJ. 2018 May 23;6:e4827. doi: 10.7717/peerj.4827. eCollection 2018.

4.

Characterization of shifts of koala (Phascolarctos cinereus) intestinal microbial communities associated with antibiotic treatment.

Dahlhausen KE, Doroud L, Firl AJ, Polkinghorne A, Eisen JA.

PeerJ. 2018 Mar 12;6:e4452. doi: 10.7717/peerj.4452. eCollection 2018.

5.

Correction: A microbial survey of the International Space Station (ISS).

Lang JM, Coil DA, Neches RY, Brown WE, Cavalier D, Severance M, Hampton-Marcell JT, Gilbert JA, Eisen JA.

PeerJ. 2018 Feb 27;5. pii: e4029/correction-1. doi: 10.7717/peerj.4029/correction-1. eCollection 2018.

6.

A microbial survey of the International Space Station (ISS).

Lang JM, Coil DA, Neches RY, Brown WE, Cavalier D, Severance M, Hampton-Marcell JT, Gilbert JA, Eisen JA.

PeerJ. 2017 Dec 5;5:e4029. doi: 10.7717/peerj.4029. eCollection 2017. Erratum in: PeerJ. 2018 Feb 27;5:.

7.

Corrigendum: Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea.

Bowers RM, Kyrpides NC, Stepanauskas R, Harmon-Smith M, Doud D, Reddy TBK, Schulz F, Jarett J, Rivers AR, Eloe-Fadrosh EA, Tringe SG, Ivanova NN, Copeland A, Clum A, Becraft ED, Malmstrom RR, Birren B, Podar M, Bork P, Weinstock GM, Garrity GM, Dodsworth JA, Yooseph S, Sutton G, Glöckner FO, Gilbert JA, Nelson WC, Hallam SJ, Jungbluth SP, Ettema TJG, Tighe S, Konstantinidis KT, Liu WT, Baker BJ, Rattei T, Eisen JA, Hedlund B, McMahon KD, Fierer N, Knight R, Finn R, Cochrane G, Karsch-Mizrachi I, Tyson GW, Rinke C; Genome Standards Consortium, Lapidus A, Meyer F, Yilmaz P, Parks DH, Eren AM, Schriml L, Banfield JF, Hugenholtz P, Woyke T.

Nat Biotechnol. 2018 Feb 6;36(2):196. doi: 10.1038/nbt0218-196a. No abstract available.

8.

Rokubacteria: Genomic Giants among the Uncultured Bacterial Phyla.

Becraft ED, Woyke T, Jarett J, Ivanova N, Godoy-Vitorino F, Poulton N, Brown JM, Brown J, Lau MCY, Onstott T, Eisen JA, Moser D, Stepanauskas R.

Front Microbiol. 2017 Nov 28;8:2264. doi: 10.3389/fmicb.2017.02264. eCollection 2017.

9.

The Green Berry Consortia of the Sippewissett Salt Marsh: Millimeter-Sized Aggregates of Diazotrophic Unicellular Cyanobacteria.

Wilbanks EG, Salman-Carvalho V, Jaekel U, Humphrey PT, Eisen JA, Buckley DH, Zinder SH.

Front Microbiol. 2017 Sep 4;8:1623. doi: 10.3389/fmicb.2017.01623. eCollection 2017.

10.

Microbiome succession during ammonification in eelgrass bed sediments.

Ettinger CL, Williams SL, Abbott JM, Stachowicz JJ, Eisen JA.

PeerJ. 2017 Aug 16;5:e3674. doi: 10.7717/peerj.3674. eCollection 2017.

11.

Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea.

Bowers RM, Kyrpides NC, Stepanauskas R, Harmon-Smith M, Doud D, Reddy TBK, Schulz F, Jarett J, Rivers AR, Eloe-Fadrosh EA, Tringe SG, Ivanova NN, Copeland A, Clum A, Becraft ED, Malmstrom RR, Birren B, Podar M, Bork P, Weinstock GM, Garrity GM, Dodsworth JA, Yooseph S, Sutton G, Glöckner FO, Gilbert JA, Nelson WC, Hallam SJ, Jungbluth SP, Ettema TJG, Tighe S, Konstantinidis KT, Liu WT, Baker BJ, Rattei T, Eisen JA, Hedlund B, McMahon KD, Fierer N, Knight R, Finn R, Cochrane G, Karsch-Mizrachi I, Tyson GW, Rinke C; Genome Standards Consortium, Lapidus A, Meyer F, Yilmaz P, Parks DH, Eren AM, Schriml L, Banfield JF, Hugenholtz P, Woyke T.

Nat Biotechnol. 2017 Aug 8;35(8):725-731. doi: 10.1038/nbt.3893.

PMID:
28787424
12.

1,003 reference genomes of bacterial and archaeal isolates expand coverage of the tree of life.

Mukherjee S, Seshadri R, Varghese NJ, Eloe-Fadrosh EA, Meier-Kolthoff JP, Göker M, Coates RC, Hadjithomas M, Pavlopoulos GA, Paez-Espino D, Yoshikuni Y, Visel A, Whitman WB, Garrity GM, Eisen JA, Hugenholtz P, Pati A, Ivanova NN, Woyke T, Klenk HP, Kyrpides NC.

Nat Biotechnol. 2017 Jul;35(7):676-683. doi: 10.1038/nbt.3886. Epub 2017 Jun 12.

13.

Complete Genome Sequence of Dolosigranulum pigrum from a Patient with Interstitial Lung Disease Using Single-Molecule Real-Time Sequencing Technology.

Mukhopadhyay R, Joaquin J, Hogue R, Fitzgerald S, Jospin G, Mars K, Eisen JA, Chaturvedi V.

Genome Announc. 2017 May 4;5(18). pii: e00317-17. doi: 10.1128/genomeA.00317-17.

14.

Microbial communities in sediment from Zostera marina patches, but not the Z. marina leaf or root microbiomes, vary in relation to distance from patch edge.

Ettinger CL, Voerman SE, Lang JM, Stachowicz JJ, Eisen JA.

PeerJ. 2017 Apr 27;5:e3246. doi: 10.7717/peerj.3246. eCollection 2017.

15.

Gut Check: The evolution of an educational board game.

Coil DA, Ettinger CL, Eisen JA.

PLoS Biol. 2017 Apr 28;15(4):e2001984. doi: 10.1371/journal.pbio.2001984. eCollection 2017 Apr.

16.

Complete Genome Sequence of a Paenalcaligenes hominis Strain Isolated from a Paraplegic Patient with Neurogenic Bladder Using Single-Molecule Real-Time Sequencing Technology.

Mukhopadhyay R, Joaquin J, Hogue R, Kilaru A, Jospin G, Mars K, Eisen JA, Chaturvedi V.

Genome Announc. 2017 Apr 27;5(17). pii: e00252-17. doi: 10.1128/genomeA.00252-17.

17.

Global-Scale Structure of the Eelgrass Microbiome.

Fahimipour AK, Kardish MR, Lang JM, Green JL, Eisen JA, Stachowicz JJ.

Appl Environ Microbiol. 2017 May 31;83(12). pii: e03391-16. doi: 10.1128/AEM.03391-16. Print 2017 Jun 15.

19.

Research priorities for harnessing plant microbiomes in sustainable agriculture.

Busby PE, Soman C, Wagner MR, Friesen ML, Kremer J, Bennett A, Morsy M, Eisen JA, Leach JE, Dangl JL.

PLoS Biol. 2017 Mar 28;15(3):e2001793. doi: 10.1371/journal.pbio.2001793. eCollection 2017 Mar.

20.

Draft Genome Sequence of Propionibacterium avidum Strain UCD-PD2 Isolated from a Feline Anal Sac.

Dahms PA, Martin AL, Ganz HH, Eisen JA, Coil DA.

Genome Announc. 2017 Mar 23;5(12). pii: e00034-17. doi: 10.1128/genomeA.00034-17.

21.

Community-Level Differences in the Microbiome of Healthy Wild Mallards and Those Infected by Influenza A Viruses.

Ganz HH, Doroud L, Firl AJ, Hird SM, Eisen JA, Boyce WM.

mSystems. 2017 Feb 28;2(1). pii: e00188-16. doi: 10.1128/mSystems.00188-16. eCollection 2017 Jan-Feb.

22.

Genomic attributes of extended-spectrum β-lactamase-producing Escherichia coli isolated from patients in Lebanon.

Tokajian S, Salloum T, Eisen JA, Jospin G, Farra A, Mokhbat JE, Coil DA.

Future Microbiol. 2017 Mar;12:213-226. doi: 10.2217/fmb-2017-0171. Epub 2017 Feb 27.

PMID:
28262042
23.

Draft Genome Sequences of Dermacoccus nishinomiyaensis Strains UCD-KPL2534 and UCD-KPL2528 Isolated from an Indoor Track Facility.

Klein BA, Lemon KP, Gajare P, Jospin G, Eisen JA, Coil DA.

Genome Announc. 2017 Feb 23;5(8). pii: e01652-16. doi: 10.1128/genomeA.01652-16.

24.

Draft Genome Sequence of Arthrobacter sp. Strain UCD-GKA (Phylum Actinobacteria).

Kincheloe GN, Eisen JA, Coil DA.

Genome Announc. 2017 Feb 9;5(6). pii: e01599-16. doi: 10.1128/genomeA.01599-16.

25.

Complete genome sequence of Jiangella gansuensis strain YIM 002T (DSM 44835T), the type species of the genus Jiangella and source of new antibiotic compounds.

Jiao JY, Carro L, Liu L, Gao XY, Zhang XT, Hozzein WN, Lapidus A, Huntemann M, Reddy TBK, Varghese N, Hadjithomas M, Ivanova NN, Göker M, Pillay M, Eisen JA, Woyke T, Klenk HP, Kyrpides NC, Li WJ.

Stand Genomic Sci. 2017 Feb 3;12:21. doi: 10.1186/s40793-017-0226-6. eCollection 2017.

27.

Recent Outbreaks of Shigellosis in California Caused by Two Distinct Populations of Shigella sonnei with either Increased Virulence or Fluoroquinolone Resistance.

Kozyreva VK, Jospin G, Greninger AL, Watt JP, Eisen JA, Chaturvedi V.

mSphere. 2016 Dec 21;1(6). pii: e00344-16. doi: 10.1128/mSphere.00344-16. eCollection 2016 Nov-Dec.

28.

Draft Genome Sequence of Enterococcus faecalis Strain UCD-PD3.

De Vries DR, Martin AL, Ganz HH, Eisen JA, Coil DA.

Genome Announc. 2016 Dec 15;4(6). pii: e01386-16. doi: 10.1128/genomeA.01386-16.

29.

Genome Analysis of Streptococcus pyogenes Associated with Pharyngitis and Skin Infections.

Ibrahim J, Eisen JA, Jospin G, Coil DA, Khazen G, Tokajian S.

PLoS One. 2016 Dec 15;11(12):e0168177. doi: 10.1371/journal.pone.0168177. eCollection 2016.

30.

Draft Genome Sequence of Curtobacterium sp. Strain UCD-KPL2560 (Phylum Actinobacteria).

Klein BA, Lemon KP, Faller LL, Jospin G, Eisen JA, Coil DA.

Genome Announc. 2016 Oct 6;4(5). pii: e01040-16. doi: 10.1128/genomeA.01040-16.

31.
32.

Draft Genome Sequence of Gordonia sp. Strain UCD-TK1 (Phylum Actinobacteria).

Koenigsaecker TM, Eisen JA, Coil DA.

Genome Announc. 2016 Oct 13;4(5). pii: e01121-16. doi: 10.1128/genomeA.01121-16.

33.

Draft Genome Sequence of Tenacibaculum soleae UCD-KL19.

Lujan KM, Eisen JA, Coil DA.

Genome Announc. 2016 Oct 13;4(5). pii: e01120-16. doi: 10.1128/genomeA.01120-16.

34.

Root-hair endophyte stacking in finger millet creates a physicochemical barrier to trap the fungal pathogen Fusarium graminearum.

Mousa WK, Shearer C, Limay-Rios V, Ettinger CL, Eisen JA, Raizada MN.

Nat Microbiol. 2016 Sep 26;1:16167. doi: 10.1038/nmicrobiol.2016.167.

PMID:
27669453
35.

Genome Sequence of a Multidrug-Resistant Strain of Bacillus pumilus, CB01, Isolated from the Feces of an American Crow, Corvus brachyrhynchos.

Nelson RL, Castro MA, Katti M, Eisen JA, Van Laar TA.

Genome Announc. 2016 Aug 18;4(4). pii: e00807-16. doi: 10.1128/genomeA.00807-16.

36.

Draft Genome Sequence of Klebsiella pneumoniae UCD-JA29 Isolated from a Patient with Sepsis.

Alexiev A, Coil DA, Jospin G, Eisen JA, Adams JY.

Genome Announc. 2016 May 5;4(3). pii: e00234-16. doi: 10.1128/genomeA.00234-16.

37.

Growth of 48 built environment bacterial isolates on board the International Space Station (ISS).

Coil DA, Neches RY, Lang JM, Brown WE, Severance M, Cavalier D, Eisen JA.

PeerJ. 2016 Mar 22;4:e1842. doi: 10.7717/peerj.1842. eCollection 2016.

38.

Draft Genome Sequences of Two Pseudoalteromonas porphyrae Strains Isolated from Seagrass Sediment.

Lee RD, Jospin G, Lang JM, Eisen JA, Coil DA.

Genome Announc. 2016 Mar 17;4(2). pii: e00092-16. doi: 10.1128/genomeA.00092-16.

39.

Draft Genome Sequence of Cobetia sp. UCD-24C, Isolated from Roots and Leaves of the Seagrass Zostera marina.

Alexiev A, Krusor ML, Jospin G, Lang JM, Eisen JA, Coil DA.

Genome Announc. 2016 Mar 10;4(2). pii: e00116-16. doi: 10.1128/genomeA.00116-16.

40.

Draft Genome Sequences of Two Vibrio splendidus Strains, Isolated from Seagrass Sediment.

Lee RD, Jospin G, Lang JM, Eisen JA, Coil DA.

Genome Announc. 2016 Feb 18;4(1). pii: e01769-15. doi: 10.1128/genomeA.01769-15.

41.

Draft Genome Sequences of Two Pseudoalteromonas Strains Isolated from Roots and Leaf Blades of the Seagrass Zostera marina.

Alexiev A, Krusor ML, Jospin G, Lang JM, Eisen JA, Coil DA.

Genome Announc. 2016 Feb 18;4(1). pii: e00010-16. doi: 10.1128/genomeA.00010-16.

42.

Draft Genome Sequences of Acinetobacter baumannii Strains Harboring the blaNDM-1 Gene Isolated in Lebanon from Civilians Wounded during the Syrian Civil War.

Tokajian S, Eisen JA, Jospin G, Hamze M, Rafei R, Salloum T, Ibrahim J, Coil DA.

Genome Announc. 2016 Jan 28;4(1). pii: e01678-15. doi: 10.1128/genomeA.01678-15.

43.

Draft Genome Sequence of Klebsiella pneumoniae KGM-IMP216 Harboring blaCTX-M-15, blaDHA-1, blaTEM-1B, blaNDM-1, blaSHV-28, and blaOXA-1, Isolated from a Patient in Lebanon.

Tokajian S, Eisen JA, Jospin G, Matar G, Araj GF, Coil DA.

Genome Announc. 2016 Jan 28;4(1). pii: e01632-15. doi: 10.1128/genomeA.01632-15.

44.

Additional Draft Genome Sequences of Escherichia coli Strains Isolated from Septic Patients.

Coil DA, Jospin G, Eisen JA, Adams JY.

Genome Announc. 2016 Jan 21;4(1). pii: e01614-15. doi: 10.1128/genomeA.01614-15.

45.

Porphyrobacter mercurialis sp. nov., isolated from a stadium seat and emended description of the genus Porphyrobacter.

Coil DA, Flanagan JC, Stump A, Alexiev A, Lang JM, Eisen JA.

PeerJ. 2015 Nov 12;3:e1400. doi: 10.7717/peerj.1400. eCollection 2015.

46.

Draft Genome Sequence of Bacillus vietnamensis Strain UCD-SED5 (Phylum Firmicutes).

Lee RD, Jospin G, Lang JM, Eisen JA, Coil DA.

Genome Announc. 2015 Nov 19;3(6). pii: e01376-15. doi: 10.1128/genomeA.01376-15.

47.

Draft Genome Sequence of Bacillus safensis JPL-MERTA-8-2, Isolated from a Mars-Bound Spacecraft.

Coil DA, Benardini JN, Eisen JA.

Genome Announc. 2015 Nov 19;3(6). pii: e01360-15. doi: 10.1128/genomeA.01360-15.

48.

Draft Genome Sequence of Porphyrobacter mercurialis (sp. nov.) Strain Coronado.

Coil DA, Eisen JA.

Genome Announc. 2015 Nov 19;3(6). pii: e00856-15. doi: 10.1128/genomeA.00856-15.

49.

Comparative Genomics of the Genus Porphyromonas Identifies Adaptations for Heme Synthesis within the Prevalent Canine Oral Species Porphyromonas cangingivalis.

O'Flynn C, Deusch O, Darling AE, Eisen JA, Wallis C, Davis IJ, Harris SJ.

Genome Biol Evol. 2015 Nov 13;7(12):3397-413. doi: 10.1093/gbe/evv220.

50.

Microbial Mat Communities along an Oxygen Gradient in a Perennially Ice-Covered Antarctic Lake.

Jungblut AD, Hawes I, Mackey TJ, Krusor M, Doran PT, Sumner DY, Eisen JA, Hillman C, Goroncy AK.

Appl Environ Microbiol. 2015 Nov 13;82(2):620-30. doi: 10.1128/AEM.02699-15. Print 2016 Jan 15.

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