Draft genome sequence of anammox bacterium "Candidatus Scalindua brodae," obtained using differential coverage binning of sequencing data from two reactor enrichments

Genome Announcements

Volumn 3, Issue 1, 2015, Pages

  Speth, Daan R ^a   Russ, Lina ^a   Kartal, Boran ^a   op den Camp, Huub J M ^a   Dutilh, Bas E ^b,c,d   Jetten, Mike S M ^a,e  

^a RADBOUD UNIVERSITY NIJMEGEN   (Netherlands)

^b UTRECHT UNIVERSITY   (Netherlands)

^c RADBOUD UNIVERSITY MEDICAL CENTER   (Netherlands)

^d FEDERAL UNIVERSITY OF RIO DE JANEIRO   (Brazil)

^e DELFT UNIVERSITY OF TECHNOLOGY   (Netherlands)

Author keywords

[No Author keywords available]

Indexed keywords

EID: 85007207126     PISSN: None     EISSN: 21698287     Source Type: Journal    
DOI: 10.1128/genomeA.01415-14     Document Type: Article

References (12)

1. Kartal B, Maalcke WJ, de Almeida NM, Cirpus I, Gloerich J, Geerts W, Op den Camp HJM, Harhangi HR, Janssen-Megens EM, Francoijs K-J, Stunnenberg HG, Keltjens JT, Jetten MSM, Strous M. 2011. Molecular mechanism of anaerobic ammonium oxidation. Nature 479:127-130. http://dx.doi.org/10.1038/nature10453.
2. Jetten MSM, Op den Camp HJ, Kuenen JG, Strous M. 2010. Description of the order Brocadiales, p 596-603. In Krieg NR, Staley JT, Hedlund BP, Paster BJ, Ward N, Ludwig W, Whitman WB (ed), Bergey's manual of systematic bacteriology, vol 4. Springer Verlag, Heidelberg, Germany.
3. Strous M, Pelletier E, Mangenot S, Rattei T, Lehner A, Taylor MW, Horn M, Daims H, Bartol-Mavel D, Wincker P, Barbe V, Fonknechten N, Vallenet D, Segurens B, Schenowitz-Truong C, Médigue C, Collingro A, Snel B, Dutilh BE, Op den Camp HJM, van der Drift C, Cirpus I, van de Pas-Schoonen KT, Harhangi HR, van Niftrik L, Schmid M, Keltjens J, van de Vossenberg J, Kartal B, Meier H, Frishman D, Huynen MA, Mewes H-W, Weissenbach J, Jetten MSM, Wagner M, Le Paslier D. 2006. Deciphering the evolution and metabolism of an anammox bacterium from a community genome. Nature 440: 790-794. http://dx.doi.org/10.1038/nature04647.
4. Hira D, Toh H, Migita CT, Okubo H, Nishiyama T, Hattori M, Furukawa K, Fujii T. 2012. Anammox organism KSU-1 expresses a NirKtype copper-containing nitrite reductase instead of a NirS-type with cytochrome cd1. FEBS Lett 586:1658-1663. http://dx.doi.org/10.1016/j.febslet. 2012.04.041.
5. Ferousi C, Speth DR, Reimann J, Op den Camp HJ, Allen JW, Keltjens JT, Jetten MS. 2013. Identification of the type II cytochrome c maturation pathway in anammox bacteria by comparative genomics. BMC Microbiol 13:265. http://dx.doi.org/10.1186/1471-2180-13-265.
6. van de Vossenberg J, Woebken D, Maalcke WJ, Wessels HJCT, Dutilh BE, Kartal B, Janssen-Megens EM, Roeselers G, Yan J, Speth D, Gloerich J, Geerts W, van der Biezen E, Pluk W, Francoijs K-J, Russ L, Lam P, Malfatti SA, Tringe SG, Haaijer SCM, Op den Camp HJM, Stunnenberg HG, Amann R, Kuypers MMM, Jetten MSM. 2013. The metagenome of the marine anammox bacterium "Candidatus Scalindua profunda" illustrates the versatility of this globally important nitrogen cycle bacterium. Environ Microbiol 15:1275-1289. http://dx.doi.org/10.1111/j.1462-2920.2012.02774.x.
7. van der Star WRL, Miclea AI, van Dongen UGJM, Muyzer G, Picioreanu C, van Loosdrecht MCM. 2008. The membrane bioreactor: A novel tool to grow anammox bacteria as free cells. Biotechnol Bioeng 101:286-294. http://dx.doi.org/10.1002/bit.21891.
8. Sharon I, Banfield JF. 2013. Genomes from metagenomics. Science 342: 1057-1058. http://dx.doi.org/10.1126/science.1247023.
9. Albertsen M, Hugenholtz P, Skarshewski A, Nielsen KL, Tyson GW, Nielsen PH. 2013. Genome sequences of rare, uncultured bacteria obtained by differential coverage binning of multiple metagenomes. Nat Biotechnol 31:533-538. http://dx.doi.org/10.1038/nbt.2579.
10. Russ L, Speth DR, Jetten MSM, Op den Camp HJM, Kartal B. 2014. Interactions between anaerobic ammonium and sulfur-oxidizing bacteria in a laboratory scale model system. Environ Microbiol 16:3487-3498. http://dx.doi.org/10.1111/1462-2920.12487.
11. Seemann T. 2014. Prokka: rapid prokaryotic genome annotation. Bioinformatics 30:2068-2069. http://dx.doi.org/10.1093/bioinformatics/btu153.
12. Parks DH, Imelfort M, Skennerton CT, Hugenholtz P, Tyson GW. 2014 CheckM: assessing the quality of microbial genomes recovered from isolates, single cells and metagenomes. PeerJ PrePrints 2:e554v1. doi: http://dx.doi.org/10.7287/peerj.preprints.554v1.