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Items: 29

1.

Phylogeny and physiology of candidate phylum BRC1 inferred from the first complete metagenome-assembled genome obtained from deep subsurface aquifer.

Kadnikov VV, Mardanov AV, Beletsky AV, Rakitin AL, Frank YA, Karnachuk OV, Ravin NV.

Syst Appl Microbiol. 2018 Sep 3. pii: S0723-2020(18)30175-9. doi: 10.1016/j.syapm.2018.08.013. [Epub ahead of print]

PMID:
30201528
2.

Shifting the limits in wheat research and breeding using a fully annotated reference genome.

International Wheat Genome Sequencing Consortium (IWGSC); IWGSC RefSeq principal investigators:, Appels R, Eversole K, Feuillet C, Keller B, Rogers J, Stein N; IWGSC whole-genome assembly principal investigators:, Pozniak CJ, Stein N, Choulet F, Distelfeld A, Eversole K, Poland J, Rogers J, Ronen G, Sharpe AG; Whole-genome sequencing and assembly:, Pozniak C, Ronen G, Stein N, Barad O, Baruch K, Choulet F, Keeble-Gagnère G, Mascher M, Sharpe AG, Ben-Zvi G, Josselin AA; Hi-C data-based scaffolding:, Stein N, Mascher M, Himmelbach A; Whole-genome assembly quality control and analyses:, Choulet F, Keeble-Gagnère G, Mascher M, Rogers J, Balfourier F, Gutierrez-Gonzalez J, Hayden M, Josselin AA, Koh C, Muehlbauer G, Pasam RK, Paux E, Pozniak CJ, Rigault P, Sharpe AG, Tibbits J, Tiwari V; Pseudomolecule assembly:, Choulet F, Keeble-Gagnère G, Mascher M, Josselin AA, Rogers J; RefSeq genome structure and gene analyses:, Spannagl M, Choulet F, Lang D, Gundlach H, Haberer G, Keeble-Gagnère G, Mayer KFX, Ormanbekova D, Paux E, Prade V, Šimková H, Wicker T; Automated annotation:, Choulet F, Spannagl M, Swarbreck D, Rimbert H, Felder M, Guilhot N, Gundlach H, Haberer G, Kaithakottil G, Keilwagen J, Lang D, Leroy P, Lux T, Mayer KFX, Twardziok S, Venturini L; Manual gene curation:, Appels R, Rimbert H, Choulet F, Juhász A, Keeble-Gagnère G; Subgenome comparative analyses:, Choulet F, Spannagl M, Lang D, Abrouk M, Haberer G, Keeble-Gagnère G, Mayer KFX, Wicker T; Transposable elements:, Choulet F, Wicker T, Gundlach H, Lang D, Spannagl M; Phylogenomic analyses:, Lang D, Spannagl M, Appels R, Fischer I; Transcriptome analyses and RNA-seq data:, Uauy C, Borrill P, Ramirez-Gonzalez RH, Appels R, Arnaud D, Chalabi S, Chalhoub B, Choulet F, Cory A, Datla R, Davey MW, Hayden M, Jacobs J, Lang D, Robinson SJ, Spannagl M, Steuernagel B, Tibbits J, Tiwari V, van Ex F, Wulff BBH; Whole-genome methylome:, Pozniak CJ, Robinson SJ, Sharpe AG, Cory A; Histone mark analyses:, Benhamed M, Paux E, Bendahmane A, Concia L, Latrasse D; BAC chromosome MTP IWGSC–Bayer Whole-Genome Profiling (WGP) tags:, Rogers J, Jacobs J, Alaux M, Appels R, Bartoš J, Bellec A, Berges H, Doležel J, Feuillet C, Frenkel Z, Gill B, Korol A, Letellier T, Olsen OA, Šimková H, Singh K, Valárik M, van der Vossen E, Vautrin S, Weining S; Chromosome LTC mapping and physical mapping quality control:, Korol A, Frenkel Z, Fahima T, Glikson V, Raats D, Rogers J; RH mapping:, Tiwari V, Gill B, Paux E, Poland J; Optical mapping:, Doležel J, Číhalíková J, Šimková H, Toegelová H, Vrána J; Recombination analyses:, Sourdille P, Darrier B; Gene family analyses:, Appels R, Spannagl M, Lang D, Fischer I, Ormanbekova D, Prade V; CBF gene family:, Barabaschi D, Cattivelli L; Dehydrin gene family:, Hernandez P, Galvez S, Budak H; NLR gene family:, Steuernagel B, Jones JDG, Witek K, Wulff BBH, Yu G; PPR gene family:, Small I, Melonek J, Zhou R; Prolamin gene family:, Juhász A, Belova T, Appels R, Olsen OA; WAK gene family:, Kanyuka K, King R; Stem solidness (SSt1) QTL team:, Nilsen K, Walkowiak S, Pozniak CJ, Cuthbert R, Datla R, Knox R, Wiebe K, Xiang D; Flowering locus C (FLC) gene team:, Rohde A, Golds T; Genome size analysis:, Doležel J, Čížková J, Tibbits J; MicroRNA and tRNA annotation:, Budak H, Akpinar BA, Biyiklioglu S; Genetic maps and mapping:, Muehlbauer G, Poland J, Gao L, Gutierrez-Gonzalez J, N'Daiye A; BAC libraries and chromosome sorting:, Doležel J, Šimková H, Číhalíková J, Kubaláková M, Šafář J, Vrána J; BAC pooling, BAC library repository, and access:, Berges H, Bellec A, Vautrin S; IWGSC sequence and data repository and access:, Alaux M, Alfama F, Adam-Blondon AF, Flores R, Guerche C, Letellier T, Loaec M, Quesneville H; Physical maps and BAC-based sequences:; 1A BAC sequencing and assembly:, Pozniak CJ, Sharpe AG, Walkowiak S, Budak H, Condie J, Ens J, Koh C, Maclachlan R, Tan Y, Wicker T; 1B BAC sequencing and assembly:, Choulet F, Paux E, Alberti A, Aury JM, Balfourier F, Barbe V, Couloux A, Cruaud C, Labadie K, Mangenot S, Wincker P; 1D, 4D, and 6D physical mapping:, Gill B, Kaur G, Luo M, Sehgal S; 2AL physical mapping:, Singh K, Chhuneja P, Gupta OP, Jindal S, Kaur P, Malik P, Sharma P, Yadav B; 2AS physical mapping:, Singh NK, Khurana J, Chaudhary C, Khurana P, Kumar V, Mahato A, Mathur S, Sevanthi A, Sharma N, Tomar RS; 2B, 2D, 4B, 5BL, and 5DL IWGSC–Bayer Whole-Genome Profiling (WGP) physical maps:, Rogers J, Jacobs J, Alaux M, Bellec A, Berges H, Doležel J, Feuillet C, Frenkel Z, Gill B, Korol A, van der Vossen E, Vautrin S; 3AL physical mapping:, Gill B, Kaur G, Luo M, Sehgal S; 3DS physical mapping and BAC sequencing and assembly:, Bartoš J, Holušová K, Plíhal O; 3DL BAC sequencing and assembly:, Clark MD, Heavens D, Kettleborough G, Wright J; 4A physical mapping, BAC sequencing, assembly, and annotation:, Valárik M, Abrouk M, Balcárková B, Holušová K, Hu Y, Luo M; 5BS BAC sequencing and assembly:, Salina E, Ravin N, Skryabin K, Beletsky A, Kadnikov V, Mardanov A, Nesterov M, Rakitin A, Sergeeva E; 6B BAC sequencing and assembly:, Handa H, Kanamori H, Katagiri S, Kobayashi F, Nasuda S, Tanaka T, Wu J; 7A physical mapping and BAC sequencing:, Appels R, Hayden M, Keeble-Gagnère G, Rigault P, Tibbits J; 7B physical mapping, BAC sequencing, and assembly:, Olsen OA, Belova T, Cattonaro F, Jiumeng M, Kugler K, Mayer KFX, Pfeifer M, Sandve S, Xun X, Zhan B; 7DS BAC sequencing and assembly:, Šimková H, Abrouk M, Batley J, Bayer PE, Edwards D, Hayashi S, Toegelová H, Tulpová Z, Visendi P; 7DL physical mapping and BAC sequencing:, Weining S, Cui L, Du X, Feng K, Nie X, Tong W, Wang L; Figures:, Borrill P, Gundlach H, Galvez S, Kaithakottil G, Lang D, Lux T, Mascher M, Ormanbekova D, Prade V, Ramirez-Gonzalez RH, Spannagl M, Stein N, Uauy C, Venturini L; Manuscript writing team:, Stein N, Appels R, Eversole K, Rogers J, Borrill P, Cattivelli L, Choulet F, Hernandez P, Kanyuka K, Lang D, Mascher M, Nilsen K, Paux E, Pozniak CJ, Ramirez-Gonzalez RH, Šimková H, Small I, Spannagl M, Swarbreck D, Uauy C.

Science. 2018 Aug 17;361(6403). pii: eaar7191. doi: 10.1126/science.aar7191. Epub 2018 Aug 16.

PMID:
30115783
3.

A metagenomic window into the 2-km-deep terrestrial subsurface aquifer revealed multiple pathways of organic matter decomposition.

Kadnikov VV, Mardanov AV, Beletsky AV, Banks D, Pimenov NV, Frank YA, Karnachuk OV, Ravin NV.

FEMS Microbiol Ecol. 2018 Oct 1;94(10). doi: 10.1093/femsec/fiy152.

PMID:
30101334
4.

Lignite coal burning seam in the remote Altai Mountains harbors a hydrogen-driven thermophilic microbial community.

Kadnikov VV, Mardanov AV, Ivasenko DA, Antsiferov DV, Beletsky AV, Karnachuk OV, Ravin NV.

Sci Rep. 2018 Apr 30;8(1):6730. doi: 10.1038/s41598-018-25146-9.

5.

Metagenome of the Siberian Underground Water Reservoir.

Kadnikov VV, Frank YA, Mardanov AV, Beletsky AV, Karnachuk OV, Ravin NV.

Genome Announc. 2017 Nov 22;5(47). pii: e01317-17. doi: 10.1128/genomeA.01317-17.

6.

Sugar Metabolism of the First Thermophilic Planctomycete Thermogutta terrifontis: Comparative Genomic and Transcriptomic Approaches.

Elcheninov AG, Menzel P, Gudbergsdottir SR, Slesarev AI, Kadnikov VV, Krogh A, Bonch-Osmolovskaya EA, Peng X, Kublanov IV.

Front Microbiol. 2017 Nov 2;8:2140. doi: 10.3389/fmicb.2017.02140. eCollection 2017.

7.

A Novel Uncultured Bacterium of the Family Gallionellaceae: Description and Genome Reconstruction Based on the Metagenomic Analysis of Microbial Community in Acid Mine Drainage.

Kadnikov VV, Ivasenko DA, Beletsky AV, Mardanov AV, Danilova EV, Pimenov NV, Karnachuk OV, Ravin NV.

Mikrobiologiia. 2016 Jul;85(4):421-435.

PMID:
28853774
8.

Genome sequence of the acid-tolerant Desulfovibrio sp. DV isolated from the sediments of a Pb-Zn mine tailings dam in the Chita region, Russia.

Kovaliova A, Kadnikov VV, Antsiferov DV, Beletsky AV, Danilova EV, Avakyan MR, Mardanov AV, Karnachuk OV.

Genom Data. 2017 Jan 28;11:125-127. doi: 10.1016/j.gdata.2017.01.007. eCollection 2017 Mar.

9.

Genome sequence of the copper resistant and acid-tolerant Desulfosporosinus sp. BG isolated from the tailings of a molybdenum-tungsten mine in the Transbaikal area.

Karnachuk OV, Kadnikov VV, Panova IA, Mardanov AV, Beletsky AV, Danilova EV, Avakyan MR, Ravin NV.

Genom Data. 2016 Dec 29;11:106-108. doi: 10.1016/j.gdata.2016.12.014. eCollection 2017 Mar.

10.

The loss of photosynthetic pathways in the plastid and nuclear genomes of the non-photosynthetic mycoheterotrophic eudicot Monotropa hypopitys.

Ravin NV, Gruzdev EV, Beletsky AV, Mazur AM, Prokhortchouk EB, Filyushin MA, Kochieva EZ, Kadnikov VV, Mardanov AV, Skryabin KG.

BMC Plant Biol. 2016 Nov 16;16(Suppl 3):238. doi: 10.1186/s12870-016-0929-7.

11.

Stable and Variable Parts of Microbial Community in Siberian Deep Subsurface Thermal Aquifer System Revealed in a Long-Term Monitoring Study.

Frank YA, Kadnikov VV, Gavrilov SN, Banks D, Gerasimchuk AL, Podosokorskaya OA, Merkel AY, Chernyh NA, Mardanov AV, Ravin NV, Karnachuk OV, Bonch-Osmolovskaya EA.

Front Microbiol. 2016 Dec 27;7:2101. doi: 10.3389/fmicb.2016.02101. eCollection 2016.

12.

Genome sequencing and annotation of Geobacillus sp. 1017, a hydrocarbon-oxidizing thermophilic bacterium isolated from a heavy oil reservoir (China).

Kadnikov VV, Mardanov AV, Poltaraus AB, Sokolova DS, Semenova EM, Ravin NV, Tourova TP, Nazina TN.

Genom Data. 2016 Dec 29;11:95-97. doi: 10.1016/j.gdata.2016.12.011. eCollection 2017 Mar.

13.

Metagenomic analysis of microbial community of a parasitoid wasp Megaphragma amalphitanum.

Nedoluzhko AV, Sharko FS, Tsygankova SV, Boulygina ES, Sokolov AS, Rastorguev SM, Kadnikov VV, Mardanov AV, Ravin NV, Mazur AM, Polilov AA, Gruzdeva NM, Prokhortchouk EB, Skryabin KG.

Genom Data. 2016 Dec 21;11:87-88. doi: 10.1016/j.gdata.2016.12.007. eCollection 2017 Mar.

14.

Characterization and Genome Analysis of the First Facultatively Alkaliphilic Thermodesulfovibrio Isolated from the Deep Terrestrial Subsurface.

Frank YA, Kadnikov VV, Lukina AP, Banks D, Beletsky AV, Mardanov AV, Sen'kina EI, Avakyan MR, Karnachuk OV, Ravin NV.

Front Microbiol. 2016 Dec 19;7:2000. doi: 10.3389/fmicb.2016.02000. eCollection 2016.

15.

Genome Analysis of Thermosulfurimonas dismutans, the First Thermophilic Sulfur-Disproportionating Bacterium of the Phylum Thermodesulfobacteria.

Mardanov AV, Beletsky AV, Kadnikov VV, Slobodkin AI, Ravin NV.

Front Microbiol. 2016 Jun 17;7:950. doi: 10.3389/fmicb.2016.00950. eCollection 2016.

16.

Genomic insights into a new acidophilic, copper-resistant Desulfosporosinus isolate from the oxidized tailings area of an abandoned gold mine.

Mardanov AV, Panova IA, Beletsky AV, Avakyan MR, Kadnikov VV, Antsiferov DV, Banks D, Frank YA, Pimenov NV, Ravin NV, Karnachuk OV.

FEMS Microbiol Ecol. 2016 Aug;92(8). pii: fiw111. doi: 10.1093/femsec/fiw111. Epub 2016 May 23.

PMID:
27222219
17.

Diversity of bacteria of the genus Bacillus on board of international space station.

Alekhova TA, Zakharchuk LM, Tatarinova NY, Kadnikov VV, Mardanov AV, Ravin NV, Skryabin KG.

Dokl Biochem Biophys. 2015;465:347-50. doi: 10.1134/S1607672915060010. Epub 2016 Jan 5.

PMID:
26728721
18.

[Characteristics of the new plasmid, pMTB1, from the metagenome of the microbial community of underground thermal waters of Western Siberia].

Kadnikov VV, Mardanov AV, Beleckiĭ AV, Karnachuk OV, Ravin NV.

Izv Akad Nauk Ser Biol. 2014 May-Jun;(3):236-40. Russian.

PMID:
25731033
19.

Draft genome sequence of the first acid-tolerant sulfate-reducing deltaproteobacterium Desulfovibrio sp. TomC having potential for minewater treatment.

Karnachuk OV, Mardanov AV, Avakyan MR, Kadnikov VV, Vlasova M, Beletsky AV, Gerasimchuk AL, Ravin NV.

FEMS Microbiol Lett. 2015 Feb;362(4). doi: 10.1093/femsle/fnv007. Epub 2015 Jan 18.

PMID:
25724779
20.

The 203 kbp mitochondrial genome of the phytopathogenic fungus Sclerotinia borealis reveals multiple invasions of introns and genomic duplications.

Mardanov AV, Beletsky AV, Kadnikov VV, Ignatov AN, Ravin NV.

PLoS One. 2014 Sep 12;9(9):e107536. doi: 10.1371/journal.pone.0107536. eCollection 2014.

21.

Draft Genome Sequence of Sclerotinia borealis, a Psychrophilic Plant Pathogenic Fungus.

Mardanov AV, Beletsky AV, Kadnikov VV, Ignatov AN, Ravin NV.

Genome Announc. 2014 Jan 23;2(1). pii: e01175-13. doi: 10.1128/genomeA.01175-13.

22.

Metagenomic Analysis of the Dynamic Changes in the Gut Microbiome of the Participants of the MARS-500 Experiment, Simulating Long Term Space Flight.

Mardanov AV, Babykin MM, Beletsky AV, Grigoriev AI, Zinchenko VV, Kadnikov VV, Kirpichnikov MP, Mazur AM, Nedoluzhko AV, Novikova ND, Prokhortchouk EB, Ravin NV, Skryabin KG, Shestakov SV.

Acta Naturae. 2013 Jul;5(3):116-25.

23.

Genome sequence and analysis of methylotrophic yeast Hansenula polymorpha DL1.

Ravin NV, Eldarov MA, Kadnikov VV, Beletsky AV, Schneider J, Mardanova ES, Smekalova EM, Zvereva MI, Dontsova OA, Mardanov AV, Skryabin KG.

BMC Genomics. 2013 Nov 27;14:837. doi: 10.1186/1471-2164-14-837.

24.

Genomic analysis of Melioribacter roseus, facultatively anaerobic organotrophic bacterium representing a novel deep lineage within Bacteriodetes/Chlorobi group.

Kadnikov VV, Mardanov AV, Podosokorskaya OA, Gavrilov SN, Kublanov IV, Beletsky AV, Bonch-Osmolovskaya EA, Ravin NV.

PLoS One. 2013;8(1):e53047. doi: 10.1371/journal.pone.0053047. Epub 2013 Jan 2.

25.

Characterization of Melioribacter roseus gen. nov., sp. nov., a novel facultatively anaerobic thermophilic cellulolytic bacterium from the class Ignavibacteria, and a proposal of a novel bacterial phylum Ignavibacteriae.

Podosokorskaya OA, Kadnikov VV, Gavrilov SN, Mardanov AV, Merkel AY, Karnachuk OV, Ravin NV, Bonch-Osmolovskaya EA, Kublanov IV.

Environ Microbiol. 2013 Jun;15(6):1759-71. doi: 10.1111/1462-2920.12067. Epub 2013 Jan 9.

PMID:
23297868
26.

Molecular analysis of the intestinal microbiome composition of mammoth and woolly rhinoceros.

Mardanov AV, Bulygina ES, Nedoluzhko AV, Kadnikov VV, Beletskii AV, Tsygankova SV, Tikhonov AN, Ravin NV, Prokhorchuk EB, Skryabin KG.

Dokl Biochem Biophys. 2012 Jul-Aug;445:203-6. doi: 10.1134/S1607672912040060. Epub 2012 Sep 2. No abstract available.

PMID:
22941104
27.

Microbial community structure in methane hydrate-bearing sediments of freshwater Lake Baikal.

Kadnikov VV, Mardanov AV, Beletsky AV, Shubenkova OV, Pogodaeva TV, Zemskaya TI, Ravin NV, Skryabin KG.

FEMS Microbiol Ecol. 2012 Feb;79(2):348-58. doi: 10.1111/j.1574-6941.2011.01221.x. Epub 2011 Nov 1.

28.

[Warbex and Baytex against bot fly in reindeer].

Solomakha AI, Kurzaev GM, Kadnikov VV, Tacheev VS, Krasnolobov OA.

Veterinariia. 1976;(9):47-8. Russian. No abstract available.

PMID:
997233
29.

[Effectiveness of Baytex against the subcutaneous warble fly of reindeer].

Savel'ev DV, Kurzaev GM, Solomakha AI, Kadnikov VV.

Veterinariia. 1972 Dec;12:76-8. Russian. No abstract available.

PMID:
4663798

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