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Items: 1 to 50 of 180

1.

Genomic characterization of Nocardia seriolae strains isolated from diseased fish.

Han HJ, Kwak MJ, Ha SM, Yang SJ, Kim JD, Cho KH, Kim TW, Cho MY, Kim BY, Jung SH, Chun J.

Microbiologyopen. 2018 Aug 16:e00656. doi: 10.1002/mbo3.656. [Epub ahead of print]

2.

Phylogeny Trumps Chemotaxonomy: A Case Study Involving Turicella otitidis.

Baek I, Kim M, Lee I, Na SI, Goodfellow M, Chun J.

Front Microbiol. 2018 Apr 30;9:834. doi: 10.3389/fmicb.2018.00834. eCollection 2018.

3.

Genome sequence of Mycobacterium yongonense RT 955-2015 isolate from a patient misdiagnosed with multidrug-resistant tuberculosis: First clinical detection in Tanzania.

Mnyambwa NP, Kim DJ, Ngadaya E, Chun J, Ha SM, Petrucka P, Addo KK, Kazwala RR, Mfinanga SG.

Int J Infect Dis. 2018 Jun;71:82-88. doi: 10.1016/j.ijid.2018.04.796. Epub 2018 Apr 24.

4.

UBCG: Up-to-date bacterial core gene set and pipeline for phylogenomic tree reconstruction.

Na SI, Kim YO, Yoon SH, Ha SM, Baek I, Chun J.

J Microbiol. 2018 Apr;56(4):280-285. doi: 10.1007/s12275-018-8014-6. Epub 2018 Feb 28.

PMID:
29492869
5.

Proposed minimal standards for the use of genome data for the taxonomy of prokaryotes.

Chun J, Oren A, Ventosa A, Christensen H, Arahal DR, da Costa MS, Rooney AP, Yi H, Xu XW, De Meyer S, Trujillo ME.

Int J Syst Evol Microbiol. 2018 Jan;68(1):461-466. doi: 10.1099/ijsem.0.002516.

PMID:
29292687
6.

Rejection of reclassification of Lactobacillus kimchii and Lactobacillus bobalius as later subjective synonyms of Lactobacillus paralimentarius using comparative genomics.

Yang SJ, Kim BY, Chun J.

Int J Syst Evol Microbiol. 2017 Nov;67(11):4515-4517. doi: 10.1099/ijsem.0.002326. Epub 2017 Sep 18.

PMID:
28920843
7.

ContEst16S: an algorithm that identifies contaminated prokaryotic genomes using 16S RNA gene sequences.

Lee I, Chalita M, Ha SM, Na SI, Yoon SH, Chun J.

Int J Syst Evol Microbiol. 2017 Jun;67(6):2053-2057. doi: 10.1099/ijsem.0.001872. Epub 2017 Jun 22.

PMID:
28639931
8.

A large-scale evaluation of algorithms to calculate average nucleotide identity.

Yoon SH, Ha SM, Lim J, Kwon S, Chun J.

Antonie Van Leeuwenhoek. 2017 Oct;110(10):1281-1286. doi: 10.1007/s10482-017-0844-4. Epub 2017 Feb 15.

PMID:
28204908
9.

Replication of Vibrio cholerae classical CTX phage.

Kim EJ, Yu HJ, Lee JH, Kim JO, Han SH, Yun CH, Chun J, Nair GB, Kim DW.

Proc Natl Acad Sci U S A. 2017 Feb 28;114(9):2343-2348. doi: 10.1073/pnas.1701335114. Epub 2017 Feb 14.

10.

Dehalogenimonas formicexedens sp. nov., a chlorinated alkane-respiring bacterium isolated from contaminated groundwater.

Key TA, Bowman KS, Lee I, Chun J, Albuquerque L, da Costa MS, Rainey FA, Moe WM.

Int J Syst Evol Microbiol. 2017 May;67(5):1366-1373. doi: 10.1099/ijsem.0.001819. Epub 2017 Jun 5.

PMID:
28126048
11.

Introducing EzBioCloud: a taxonomically united database of 16S rRNA gene sequences and whole-genome assemblies.

Yoon SH, Ha SM, Kwon S, Lim J, Kim Y, Seo H, Chun J.

Int J Syst Evol Microbiol. 2017 May;67(5):1613-1617. doi: 10.1099/ijsem.0.001755. Epub 2017 May 30.

12.

Characterization of microbiome in bronchoalveolar lavage fluid of patients with lung cancer comparing with benign mass like lesions.

Lee SH, Sung JY, Yong D, Chun J, Kim SY, Song JH, Chung KS, Kim EY, Jung JY, Kang YA, Kim YS, Kim SK, Chang J, Park MS.

Lung Cancer. 2016 Dec;102:89-95. doi: 10.1016/j.lungcan.2016.10.016. Epub 2016 Oct 31.

PMID:
27987594
13.

Vertical distribution of bacterial community is associated with the degree of soil organic matter decomposition in the active layer of moist acidic tundra.

Kim HM, Lee MJ, Jung JY, Hwang CY, Kim M, Ro HM, Chun J, Lee YK.

J Microbiol. 2016 Nov;54(11):713-723. Epub 2016 Oct 29.

PMID:
27796925
14.

Genome sequence of the organohalide-respiring Dehalogenimonas alkenigignens type strain (IP3-3(T)).

Key TA, Richmond DP, Bowman KS, Cho YJ, Chun J, da Costa MS, Rainey FA, Moe WM.

Stand Genomic Sci. 2016 Jun 23;11:44. doi: 10.1186/s40793-016-0165-7. eCollection 2016.

15.

A single gene of a commensal microbe affects host susceptibility to enteric infection.

Yoon MY, Min KB, Lee KM, Yoon Y, Kim Y, Oh YT, Lee K, Chun J, Kim BY, Yoon SH, Lee I, Kim CY, Yoon SS.

Nat Commun. 2016 May 13;7:11606. doi: 10.1038/ncomms11606.

16.

hc-OTU: A Fast and Accurate Method for Clustering Operational Taxonomic Units Based on Homopolymer Compaction.

Park S, Choi HS, Lee B, Chun J, Won JH, Yoon S.

IEEE/ACM Trans Comput Biol Bioinform. 2018 Mar-Apr;15(2):441-451. doi: 10.1109/TCBB.2016.2535326. Epub 2016 Feb 26.

PMID:
26930691
17.

OrthoANI: An improved algorithm and software for calculating average nucleotide identity.

Lee I, Ouk Kim Y, Park SC, Chun J.

Int J Syst Evol Microbiol. 2016 Feb;66(2):1100-1103. doi: 10.1099/ijsem.0.000760. Epub 2015 Nov 9.

PMID:
26585518
18.

Complete genome sequence of Mycobacterium tuberculosis K from a Korean high school outbreak, belonging to the Beijing family.

Han SJ, Song T, Cho YJ, Kim JS, Choi SY, Bang HE, Chun J, Bai GH, Cho SN, Shin SJ.

Stand Genomic Sci. 2015 Oct 14;10:78. doi: 10.1186/s40793-015-0071-4. eCollection 2015.

19.

The Effect of Probiotics on Gut Microbiota during the Helicobacter pylori Eradication: Randomized Controlled Trial.

Oh B, Kim BS, Kim JW, Kim JS, Koh SJ, Kim BG, Lee KL, Chun J.

Helicobacter. 2016 Jun;21(3):165-74. doi: 10.1111/hel.12270. Epub 2015 Sep 23.

PMID:
26395781
20.

Telomere maintenance through recruitment of internal genomic regions.

Seo B, Kim C, Hills M, Sung S, Kim H, Kim E, Lim DS, Oh HS, Choi RM, Chun J, Shim J, Lee J.

Nat Commun. 2015 Sep 18;6:8189. doi: 10.1038/ncomms9189.

21.

Complete Genome Sequence of Middle East Respiratory Syndrome Coronavirus KOR/KNIH/002_05_2015, Isolated in South Korea.

Kim YJ, Cho YJ, Kim DW, Yang JS, Kim H, Park S, Han YW, Yun MR, Lee HS, Kim AR, Heo DR, Kim JA, Kim SJ, Jung HD, Kim N, Yoon SH, Nam JG, Kang HJ, Cheong HM, Lee JS, Chun J, Kim SS.

Genome Announc. 2015 Aug 13;3(4). pii: e00787-15. doi: 10.1128/genomeA.00787-15.

22.

Paenibacillus xanthinilyticus sp. nov., isolated from agricultural soil.

Kim DU, Kim SG, Lee H, Chun J, Cho JC, Ka JO.

Int J Syst Evol Microbiol. 2015 Sep;65(9):2937-42. doi: 10.1099/ijs.0.000359. Epub 2015 May 28.

PMID:
26023205
23.

Metagenomic insights into the bioaerosols in the indoor and outdoor environments of childcare facilities.

Shin SK, Kim J, Ha SM, Oh HS, Chun J, Sohn J, Yi H.

PLoS One. 2015 May 28;10(5):e0126960. doi: 10.1371/journal.pone.0126960. eCollection 2015.

24.

Deep-sea hydrothermal vent bacteria related to human pathogenic Vibrio species.

Hasan NA, Grim CJ, Lipp EK, Rivera IN, Chun J, Haley BJ, Taviani E, Choi SY, Hoq M, Munk AC, Brettin TS, Bruce D, Challacombe JF, Detter JC, Han CS, Eisen JA, Huq A, Colwell RR.

Proc Natl Acad Sci U S A. 2015 May 26;112(21):E2813-9. doi: 10.1073/pnas.1503928112. Epub 2015 May 11.

25.

Draft genome sequence of the psychrophilic bacterium Lacinutrix jangbogonensis PAMC 27137(T).

Lee YM, Shin SC, Baek K, Hwang CY, Hong SG, Chun J, Lee HK.

Mar Genomics. 2015 Oct;23:31-2. doi: 10.1016/j.margen.2015.04.002. Epub 2015 Apr 17.

PMID:
25896217
26.

Large-scale evaluation of experimentally determined DNA G+C contents with whole genome sequences of prokaryotes.

Kim M, Park SC, Baek I, Chun J.

Syst Appl Microbiol. 2015 Mar;38(2):79-83. doi: 10.1016/j.syapm.2014.11.008. Epub 2014 Dec 24.

PMID:
25564067
27.

Burkholderia megalochromosomata sp. nov., isolated from grassland soil.

Baek I, Seo B, Lee I, Lee K, Park SC, Yi H, Chun J.

Int J Syst Evol Microbiol. 2015 Mar;65(Pt 3):959-64. doi: 10.1099/ijs.0.000046. Epub 2015 Jan 6.

PMID:
25563916
28.

Improved pipeline for reducing erroneous identification by 16S rRNA sequences using the Illumina MiSeq platform.

Jeon YS, Park SC, Lim J, Chun J, Kim BS.

J Microbiol. 2015 Jan;53(1):60-9. doi: 10.1007/s12275-015-4601-y. Epub 2015 Jan 4.

PMID:
25557481
29.

Burkholderia monticola sp. nov., isolated from mountain soil.

Baek I, Seo B, Lee I, Yi H, Chun J.

Int J Syst Evol Microbiol. 2015 Feb;65(Pt 2):504-9. doi: 10.1099/ijs.0.066001-0. Epub 2014 Dec 3.

PMID:
25472981
30.

Profiling bacterial community in upper respiratory tracts.

Yi H, Yong D, Lee K, Cho YJ, Chun J.

BMC Infect Dis. 2014 Nov 13;14:583. doi: 10.1186/s12879-014-0583-3.

31.

Neisseria weaveri Andersen et al. 1993 is a later heterotypic synonym of Neisseria weaveri Holmes et al. 1993.

Yi H, Chun J.

Int J Syst Evol Microbiol. 2015 Feb;65(Pt 2):463-4. doi: 10.1099/ijs.0.070664-0. Epub 2014 Nov 11.

PMID:
25389153
32.

Genome sequence of the chromate-resistant bacterium Leucobacter salsicius type strain M1-8(T.).

Yun JH, Cho YJ, Chun J, Hyun DW, Bae JW.

Stand Genomic Sci. 2013 Dec 31;9(3):495-504. doi: 10.4056/sigs.4708537. eCollection 2014 Jun 15.

33.

Clonality and Resistome analysis of KPC-producing Klebsiella pneumoniae strain isolated in Korea using whole genome sequencing.

Lee Y, Kim BS, Chun J, Yong JH, Lee YS, Yoo JS, Yong D, Hong SG, D'Souza R, Thomson KS, Lee K, Chong Y.

Biomed Res Int. 2014;2014:352862. doi: 10.1155/2014/352862. Epub 2014 Jul 3.

34.

Genomic encyclopedia of bacteria and archaea: sequencing a myriad of type strains.

Kyrpides NC, Hugenholtz P, Eisen JA, Woyke T, Göker M, Parker CT, Amann R, Beck BJ, Chain PS, Chun J, Colwell RR, Danchin A, Dawyndt P, Dedeurwaerdere T, DeLong EF, Detter JC, De Vos P, Donohue TJ, Dong XZ, Ehrlich DS, Fraser C, Gibbs R, Gilbert J, Gilna P, Glöckner FO, Jansson JK, Keasling JD, Knight R, Labeda D, Lapidus A, Lee JS, Li WJ, Ma J, Markowitz V, Moore ER, Morrison M, Meyer F, Nelson KE, Ohkuma M, Ouzounis CA, Pace N, Parkhill J, Qin N, Rossello-Mora R, Sikorski J, Smith D, Sogin M, Stevens R, Stingl U, Suzuki K, Taylor D, Tiedje JM, Tindall B, Wagner M, Weinstock G, Weissenbach J, White O, Wang J, Zhang L, Zhou YG, Field D, Whitman WB, Garrity GM, Klenk HP.

PLoS Biol. 2014 Aug 5;12(8):e1001920. doi: 10.1371/journal.pbio.1001920. eCollection 2014 Aug.

35.

Lacinutrix jangbogonensis sp. nov., a psychrophilic bacterium isolated from Antarctic marine sediment and emended description of the genus Lacinutrix.

Lee YM, Hwang CY, Lee I, Jung YJ, Cho Y, Baek K, Hong SG, Kim JH, Chun J, Lee HK.

Antonie Van Leeuwenhoek. 2014 Sep;106(3):527-33. doi: 10.1007/s10482-014-0221-5. Epub 2014 Jul 20.

PMID:
25038886
36.

Draft Genome Sequence of Kitasatospora cheerisanensis KCTC 2395, Which Produces Plecomacrolide against Phytopathogenic Fungi.

Hwang JY, Kim SH, Oh HR, Cho YJ, Chun J, Chung YR, Nam DH.

Genome Announc. 2014 Jun 19;2(3). pii: e00604-14. doi: 10.1128/genomeA.00604-14.

37.

Bacterial community structure and soil properties of a subarctic tundra soil in Council, Alaska.

Kim HM, Jung JY, Yergeau E, Hwang CY, Hinzman L, Nam S, Hong SG, Kim OS, Chun J, Lee YK.

FEMS Microbiol Ecol. 2014 Aug;89(2):465-75. doi: 10.1111/1574-6941.12362.

38.

Spatial scaling effects on soil bacterial communities in Malaysian tropical forests.

Tripathi BM, Lee-Cruz L, Kim M, Singh D, Go R, Shukor NA, Husni MH, Chun J, Adams JM.

Microb Ecol. 2014 Aug;68(2):247-58.

PMID:
24658414
39.

Genome sequence of type strain of Staphylococcus aureus subsp. aureus.

Kim BS, Yi H, Chun J, Cha CJ.

Gut Pathog. 2014 Mar 17;6(1):6. doi: 10.1186/1757-4749-6-6.

40.

A vanillin derivative causes mitochondrial dysfunction and triggers oxidative stress in Cryptococcus neoformans.

Kim JH, Lee HO, Cho YJ, Kim J, Chun J, Choi J, Lee Y, Jung WH.

PLoS One. 2014 Feb 20;9(2):e89122. doi: 10.1371/journal.pone.0089122. eCollection 2014.

41.

Towards a taxonomic coherence between average nucleotide identity and 16S rRNA gene sequence similarity for species demarcation of prokaryotes.

Kim M, Oh HS, Park SC, Chun J.

Int J Syst Evol Microbiol. 2014 Feb;64(Pt 2):346-51. doi: 10.1099/ijs.0.059774-0. Erratum in: Int J Syst Evol Microbiol. 2014 May;64(Pt 5):1825.

PMID:
24505072
42.

Integrating genomics into the taxonomy and systematics of the Bacteria and Archaea.

Chun J, Rainey FA.

Int J Syst Evol Microbiol. 2014 Feb;64(Pt 2):316-24. doi: 10.1099/ijs.0.054171-0. Review.

PMID:
24505069
43.

EzEditor: a versatile sequence alignment editor for both rRNA- and protein-coding genes.

Jeon YS, Lee K, Park SC, Kim BS, Cho YJ, Ha SM, Chun J.

Int J Syst Evol Microbiol. 2014 Feb;64(Pt 2):689-91. doi: 10.1099/ijs.0.059360-0. Epub 2013 Dec 18.

PMID:
24425826
44.

The genome sequence of 'Mycobacterium massiliense' strain CIP 108297 suggests the independent taxonomic status of the Mycobacterium abscessus complex at the subspecies level.

Cho YJ, Yi H, Chun J, Cho SN, Daley CL, Koh WJ, Shin SJ.

PLoS One. 2013 Nov 27;8(11):e81560. doi: 10.1371/journal.pone.0081560. eCollection 2013.

45.

Genomic insights into the taxonomic status of the three subspecies of Bacillus subtilis.

Yi H, Chun J, Cha CJ.

Syst Appl Microbiol. 2014 Mar;37(2):95-9. doi: 10.1016/j.syapm.2013.09.006. Epub 2013 Nov 11.

PMID:
24231292
46.

Analytical tools and databases for metagenomics in the next-generation sequencing era.

Kim M, Lee KH, Yoon SW, Kim BS, Chun J, Yi H.

Genomics Inform. 2013 Sep;11(3):102-13. doi: 10.5808/GI.2013.11.3.102. Epub 2013 Sep 30. Review.

47.

Transcriptomic analysis of genes modulated by cyclo(L-phenylalanine-L-proline) in Vibrio vulnificus.

Kim IH, Son JS, Wen Y, Jeong SM, Min GY, Park NY, Lee KW, Cho YJ, Chun J, Kim KS.

J Microbiol Biotechnol. 2013 Dec;23(12):1791-801.

48.

Current status and future promise of the human microbiome.

Kim BS, Jeon YS, Chun J.

Pediatr Gastroenterol Hepatol Nutr. 2013 Jun;16(2):71-9. doi: 10.5223/pghn.2013.16.2.71. Epub 2013 Jun 30. Review.

49.

Flavobacterium limnosediminis sp. nov., isolated from sediment of a freshwater lake.

Lee K, Park SC, Yi H, Chun J.

Int J Syst Evol Microbiol. 2013 Dec;63(Pt 12):4784-9. doi: 10.1099/ijs.0.055566-0. Epub 2013 Aug 30.

PMID:
23996833
50.

Genome sequence of the moderately halophilic bacterium Salinicoccus carnicancri type strain Crm(T) (= DSM 23852(T)).

Hyun DW, Whon TW, Cho YJ, Chun J, Kim MS, Jung MJ, Shin NR, Kim JY, Kim PS, Yun JH, Lee J, Oh SJ, Bae JW.

Stand Genomic Sci. 2013 Jun 3;8(2):255-63. doi: 10.4056/sigs.3967649. eCollection 2013.

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