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Items: 1 to 50 of 55

1.

Defining the human gut host-phage network through single-cell viral tagging.

Džunková M, Low SJ, Daly JN, Deng L, Rinke C, Hugenholtz P.

Nat Microbiol. 2019 Aug 5. doi: 10.1038/s41564-019-0526-2. [Epub ahead of print]

PMID:
31384000
2.

A phylogenomic and ecological analysis of the globally abundant Marine Group II archaea (Ca. Poseidoniales ord. nov.).

Rinke C, Rubino F, Messer LF, Youssef N, Parks DH, Chuvochina M, Brown M, Jeffries T, Tyson GW, Seymour JR, Hugenholtz P.

ISME J. 2019 Mar;13(3):663-675. doi: 10.1038/s41396-018-0282-y. Epub 2018 Oct 15.

PMID:
30323263
3.

Single-Cell Genomics of Microbial Dark Matter.

Rinke C.

Methods Mol Biol. 2018;1849:99-111. doi: 10.1007/978-1-4939-8728-3_7.

PMID:
30298250
4.

A standardized bacterial taxonomy based on genome phylogeny substantially revises the tree of life.

Parks DH, Chuvochina M, Waite DW, Rinke C, Skarshewski A, Chaumeil PA, Hugenholtz P.

Nat Biotechnol. 2018 Nov;36(10):996-1004. doi: 10.1038/nbt.4229. Epub 2018 Aug 27.

PMID:
30148503
5.

The importance of designating type material for uncultured taxa.

Chuvochina M, Rinke C, Parks DH, Rappé MS, Tyson GW, Yilmaz P, Whitman WB, Hugenholtz P.

Syst Appl Microbiol. 2019 Jan;42(1):15-21. doi: 10.1016/j.syapm.2018.07.003. Epub 2018 Jul 18.

6.

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
7.

Erratum: Addendum: Comparative Genomic Analysis of the Class Epsilonproteobacteria and Proposed Reclassification to Epsilonbacteraeota (phyl. nov.).

Waite DW, Vanwonterghem I, Rinke C, Parks DH, Zhang Y, Takai K, Sievert SM, Simon J, Campbell BJ, Hanson TE, Woyke T, Klotz MG, Hugenholtz P.

Front Microbiol. 2018 Apr 18;9:772. doi: 10.3389/fmicb.2018.00772. eCollection 2018.

8.

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.

9.

Author Correction: Recovery of nearly 8,000 metagenome-assembled genomes substantially expands the tree of life.

Parks DH, Rinke C, Chuvochina M, Chaumeil PA, Woodcroft BJ, Evans PN, Hugenholtz P, Tyson GW.

Nat Microbiol. 2018 Feb;3(2):253. doi: 10.1038/s41564-017-0083-5.

PMID:
29234139
10.

Diverse Marinimicrobia bacteria may mediate coupled biogeochemical cycles along eco-thermodynamic gradients.

Hawley AK, Nobu MK, Wright JJ, Durno WE, Morgan-Lang C, Sage B, Schwientek P, Swan BK, Rinke C, Torres-Beltrán M, Mewis K, Liu WT, Stepanauskas R, Woyke T, Hallam SJ.

Nat Commun. 2017 Nov 15;8(1):1507. doi: 10.1038/s41467-017-01376-9.

11.

Recovery of nearly 8,000 metagenome-assembled genomes substantially expands the tree of life.

Parks DH, Rinke C, Chuvochina M, Chaumeil PA, Woodcroft BJ, Evans PN, Hugenholtz P, Tyson GW.

Nat Microbiol. 2017 Nov;2(11):1533-1542. doi: 10.1038/s41564-017-0012-7. Epub 2017 Sep 11. Erratum in: Nat Microbiol. 2017 Dec 12;:.

PMID:
28894102
12.

A microfluidics-based in situ chemotaxis assay to study the behaviour of aquatic microbial communities.

Lambert BS, Raina JB, Fernandez VI, Rinke C, Siboni N, Rubino F, Hugenholtz P, Tyson GW, Seymour JR, Stocker R.

Nat Microbiol. 2017 Oct;2(10):1344-1349. doi: 10.1038/s41564-017-0010-9. Epub 2017 Aug 28.

PMID:
28848238
13.

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. Erratum in: Nat Biotechnol. 2018 Feb 6;36(2):196. Nat Biotechnol. 2018 Jul 6;36(7):660.

14.

Comparative Genomic Analysis of the Class Epsilonproteobacteria and Proposed Reclassification to Epsilonbacteraeota (phyl. nov.).

Waite DW, Vanwonterghem I, Rinke C, Parks DH, Zhang Y, Takai K, Sievert SM, Simon J, Campbell BJ, Hanson TE, Woyke T, Klotz MG, Hugenholtz P.

Front Microbiol. 2017 Apr 24;8:682. doi: 10.3389/fmicb.2017.00682. eCollection 2017. Erratum in: Front Microbiol. 2018 Apr 18;9:772.

15.

Genomic Analysis of Caldithrix abyssi, the Thermophilic Anaerobic Bacterium of the Novel Bacterial Phylum Calditrichaeota.

Kublanov IV, Sigalova OM, Gavrilov SN, Lebedinsky AV, Rinke C, Kovaleva O, Chernyh NA, Ivanova N, Daum C, Reddy TB, Klenk HP, Spring S, Göker M, Reva ON, Miroshnichenko ML, Kyrpides NC, Woyke T, Gelfand MS, Bonch-Osmolovskaya EA.

Front Microbiol. 2017 Feb 20;8:195. doi: 10.3389/fmicb.2017.00195. eCollection 2017.

16.

acdc - Automated Contamination Detection and Confidence estimation for single-cell genome data.

Lux M, Krüger J, Rinke C, Maus I, Schlüter A, Woyke T, Sczyrba A, Hammer B.

BMC Bioinformatics. 2016 Dec 20;17(1):543. doi: 10.1186/s12859-016-1397-7.

17.

Validation of picogram- and femtogram-input DNA libraries for microscale metagenomics.

Rinke C, Low S, Woodcroft BJ, Raina JB, Skarshewski A, Le XH, Butler MK, Stocker R, Seymour J, Tyson GW, Hugenholtz P.

PeerJ. 2016 Sep 22;4:e2486. doi: 10.7717/peerj.2486. eCollection 2016.

18.

Phylogeny and physiology of candidate phylum 'Atribacteria' (OP9/JS1) inferred from cultivation-independent genomics.

Nobu MK, Dodsworth JA, Murugapiran SK, Rinke C, Gies EA, Webster G, Schwientek P, Kille P, Parkes RJ, Sass H, Jørgensen BB, Weightman AJ, Liu WT, Hallam SJ, Tsiamis G, Woyke T, Hedlund BP.

ISME J. 2016 Feb;10(2):273-86. doi: 10.1038/ismej.2015.97. Epub 2015 Jun 19.

19.

ProDeGe: a computational protocol for fully automated decontamination of genomes.

Tennessen K, Andersen E, Clingenpeel S, Rinke C, Lundberg DS, Han J, Dangl JL, Ivanova N, Woyke T, Kyrpides N, Pati A.

ISME J. 2016 Jan;10(1):269-72. doi: 10.1038/ismej.2015.100. Epub 2015 Jun 9.

20.

In Silico Analysis of the Metabolic Potential and Niche Specialization of Candidate Phylum "Latescibacteria" (WS3).

Youssef NH, Farag IF, Rinke C, Hallam SJ, Woyke T, Elshahed MS.

PLoS One. 2015 Jun 3;10(6):e0127499. doi: 10.1371/journal.pone.0127499. eCollection 2015.

21.

Reconstructing each cell's genome within complex microbial communities-dream or reality?

Clingenpeel S, Clum A, Schwientek P, Rinke C, Woyke T.

Front Microbiol. 2015 Jan 8;5:771. doi: 10.3389/fmicb.2014.00771. eCollection 2014.

22.

Microbial dark matter ecogenomics reveals complex synergistic networks in a methanogenic bioreactor.

Nobu MK, Narihiro T, Rinke C, Kamagata Y, Tringe SG, Woyke T, Liu WT.

ISME J. 2015 Aug;9(8):1710-22. doi: 10.1038/ismej.2014.256. Epub 2015 Jan 23.

23.

Impact of single-cell genomics and metagenomics on the emerging view of extremophile "microbial dark matter".

Hedlund BP, Dodsworth JA, Murugapiran SK, Rinke C, Woyke T.

Extremophiles. 2014 Sep;18(5):865-75. doi: 10.1007/s00792-014-0664-7. Epub 2014 Aug 12. Review.

PMID:
25113821
24.

Insights into the metabolism, lifestyle and putative evolutionary history of the novel archaeal phylum 'Diapherotrites'.

Youssef NH, Rinke C, Stepanauskas R, Farag I, Woyke T, Elshahed MS.

ISME J. 2015 Feb;9(2):447-60. doi: 10.1038/ismej.2014.141. Epub 2014 Aug 1.

25.

Stop codon reassignments in the wild.

Ivanova NN, Schwientek P, Tripp HJ, Rinke C, Pati A, Huntemann M, Visel A, Woyke T, Kyrpides NC, Rubin EM.

Science. 2014 May 23;344(6186):909-13. doi: 10.1126/science.1250691.

26.

Obtaining genomes from uncultivated environmental microorganisms using FACS-based single-cell genomics.

Rinke C, Lee J, Nath N, Goudeau D, Thompson B, Poulton N, Dmitrieff E, Malmstrom R, Stepanauskas R, Woyke T.

Nat Protoc. 2014 May;9(5):1038-48. doi: 10.1038/nprot.2014.067. Epub 2014 Apr 10.

PMID:
24722403
27.

The candidate phylum Poribacteria by single-cell genomics: new insights into phylogeny, cell-compartmentation, eukaryote-like repeat proteins, and other genomic features.

Kamke J, Rinke C, Schwientek P, Mavromatis K, Ivanova N, Sczyrba A, Woyke T, Hentschel U.

PLoS One. 2014 Jan 31;9(1):e87353. doi: 10.1371/journal.pone.0087353. eCollection 2014.

28.

An environmental bacterial taxon with a large and distinct metabolic repertoire.

Wilson MC, Mori T, Rückert C, Uria AR, Helf MJ, Takada K, Gernert C, Steffens UA, Heycke N, Schmitt S, Rinke C, Helfrich EJ, Brachmann AO, Gurgui C, Wakimoto T, Kracht M, Crüsemann M, Hentschel U, Abe I, Matsunaga S, Kalinowski J, Takeyama H, Piel J.

Nature. 2014 Feb 6;506(7486):58-62. doi: 10.1038/nature12959. Epub 2014 Jan 29. Erratum in: Nature. 2014 Mar 13;507(7491):262.

PMID:
24476823
29.

Insights into the phylogeny and coding potential of microbial dark matter.

Rinke C, Schwientek P, Sczyrba A, Ivanova NN, Anderson IJ, Cheng JF, Darling A, Malfatti S, Swan BK, Gies EA, Dodsworth JA, Hedlund BP, Tsiamis G, Sievert SM, Liu WT, Eisen JA, Hallam SJ, Kyrpides NC, Stepanauskas R, Rubin EM, Hugenholtz P, Woyke T.

Nature. 2013 Jul 25;499(7459):431-7. doi: 10.1038/nature12352. Epub 2013 Jul 14.

PMID:
23851394
30.

Single-cell genomics reveals complex carbohydrate degradation patterns in poribacterial symbionts of marine sponges.

Kamke J, Sczyrba A, Ivanova N, Schwientek P, Rinke C, Mavromatis K, Woyke T, Hentschel U.

ISME J. 2013 Dec;7(12):2287-300. doi: 10.1038/ismej.2013.111. Epub 2013 Jul 11.

31.

Progress toward the determination of correct classification rates in fire debris analysis.

Waddell EE, Song ET, Rinke CN, Williams MR, Sigman ME.

J Forensic Sci. 2013 Jul;58(4):887-96. doi: 10.1111/1556-4029.12159. Epub 2013 Mar 29.

PMID:
23551258
32.

Discriminant analysis in the presence of interferences: combined application of target factor analysis and a Bayesian soft-classifier.

Rinke CN, Williams MR, Brown C, Baudelet M, Richardson M, Sigman ME.

Anal Chim Acta. 2012 Nov 13;753:19-26. doi: 10.1016/j.aca.2012.09.042. Epub 2012 Oct 2.

PMID:
23107132
33.

Decontamination of MDA reagents for single cell whole genome amplification.

Woyke T, Sczyrba A, Lee J, Rinke C, Tighe D, Clingenpeel S, Malmstrom R, Stepanauskas R, Cheng JF.

PLoS One. 2011;6(10):e26161. doi: 10.1371/journal.pone.0026161. Epub 2011 Oct 20.

34.

Molecular characterization of the symbionts associated with marine nematodes of the genus Robbea.

Bayer C, Heindl NR, Rinke C, Lücker S, Ott JA, Bulgheresi S.

Environ Microbiol Rep. 2009 Apr;1(2):136-144.

35.

Analysis of black writing ink by electrospray ionization mass spectrometry.

Williams MR, Moody C, Arceneaux LA, Rinke C, White K, Sigman ME.

Forensic Sci Int. 2009 Oct 30;191(1-3):97-103. doi: 10.1016/j.forsciint.2009.07.003. Epub 2009 Aug 3.

PMID:
19647961
36.

High genetic similarity between two geographically distinct strains of the sulfur-oxidizing symbiont 'Candidatus Thiobios zoothamnicoli'.

Rinke C, Schmitz-Esser S, Loy A, Horn M, Wagner M, Bright M.

FEMS Microbiol Ecol. 2009 Feb;67(2):229-41. doi: 10.1111/j.1574-6941.2008.00628.x.

37.

The effects of sulphide on growth and behaviour of the thiotrophic Zoothamnium niveum symbiosis.

Rinke C, Lee R, Katz S, Bright M.

Proc Biol Sci. 2007 Sep 22;274(1623):2259-69.

38.

"Candidatus Thiobios zoothamnicoli," an ectosymbiotic bacterium covering the giant marine ciliate Zoothamnium niveum.

Rinke C, Schmitz-Esser S, Stoecker K, Nussbaumer AD, Molnár DA, Vanura K, Wagner M, Horn M, Ott JA, Bright M.

Appl Environ Microbiol. 2006 Mar;72(3):2014-21.

39.

Mutation of the catalytic domain of the foamy virus reverse transcriptase leads to loss of processivity and infectivity.

Rinke CS, Boyer PL, Sullivan MD, Hughes SH, Linial ML.

J Virol. 2002 Aug;76(15):7560-70.

40.

CPR 1986: what's new.

Rinke CM.

JAMA. 1986 Jun 6;255(21):2991-2. No abstract available.

PMID:
3702009
41.

Infant mortality and the low-birth-weight infant.

Rinke CM.

JAMA. 1985 Feb 8;253(6):826. No abstract available.

PMID:
3968820
42.

Hot tub hygiene.

Rinke CM.

JAMA. 1983 Oct 21;250(15):2031. No abstract available.

PMID:
6620505
43.

Emergency medicine and critical care: JAMA's new section.

Rinke CM.

JAMA. 1983 Aug 26;250(8):1073. No abstract available.

PMID:
6876346
44.

Surviving burns. Does early wound closure help?

Rinke CM.

JAMA. 1983 Aug 12;250(6):797. No abstract available.

PMID:
6876336
45.

Texas nurses take aim at profession's shortage.

Rinke C.

Am Med News. 1981 Aug 14;24(31):20. No abstract available.

PMID:
10252618
46.

The professional identities of women physicians.

Rinke CM.

JAMA. 1981 Jun 19;245(23):2419-21. No abstract available.

PMID:
7230473
47.

The economic and academic status of women physicians.

Rinke C.

JAMA. 1981 Jun 12;245(22):2305-6. No abstract available.

PMID:
7230457
48.

Details of circulatory system, chest yielding to computed tomography.

Rinke C, González ER.

JAMA. 1981 Mar 13;245(10):1001-3. No abstract available.

PMID:
6970271
49.

Shedding a little light on sleep disorders.

Rinke C.

JAMA. 1981 Feb 13;245(6):549. No abstract available.

PMID:
7452878
50.

Vitamin C for bronchospasm.

Rinke C.

JAMA. 1981 Feb 13;245(6):548. No abstract available.

PMID:
7452877

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