Silvanigrella aquatica strain MWH-Nonnen-W8red plasmid pNonnen2, complete sequence.
Bacteria; Bdellovibrionota; Oligoflexia; Silvanigrellales; Silvanigrellaceae; Silvanigrella.
Silvanigrella aquatica sp. nov., isolated from a freshwater lake located in the Black Forest, Germany, description of Silvanigrellaceae fam. nov., Silvanigrellales ord. nov., reclassification of the order Bdellovibrionales in the class Oligoflexia, reclassification of the families Bacteriovoracaceae and Halobacteriovoraceae in the new order Bacteriovoracales ord. nov., and reclassification of the family Pseudobacteriovoracaceae in the order Oligoflexiales
Submitted (11-OCT-2016) Research Institute for Limnology, University of Innsbruck, Mondseestrasse 9, Mondsee A-5310, Austria
REFSEQ INFORMATION: The reference sequence is identical to\nCP017836.1.\nBacteria and source DNA available from DSMZ German culture\ncollection Braunschweig Germany.\nThe annotation was added by the NCBI Prokaryotic Genome Annotation\nPipeline (PGAP). Information about PGAP can be found here:\nhttps://www.ncbi.nlm.nih.gov/genome/annotation_prok/\n\n##Genome-Assembly-Data-START##\nAssembly Method :: Hybridassembly (Eurofins Genomics) v.\n 2015\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 30.0x\nSequencing Technology :: Illumina MiSeq; 454\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 02/10/2023 13:00:38\nAnnotation Pipeline :: NCBI Prokaryotic Genome\n Annotation Pipeline (PGAP)\nAnnotation Method :: Best-placed reference protein\n set; GeneMarkS-2+\nAnnotation Software revision :: 6.4\nFeatures Annotated :: Gene; CDS; rRNA; tRNA; ncRNA\nGenes (total) :: 2,960\nCDSs (total) :: 2,907\nGenes (coding) :: 2,888\nCDSs (with protein) :: 2,888\nGenes (RNA) :: 53\nrRNAs :: 2, 5, 5 (5S, 16S, 23S)\ncomplete rRNAs :: 2, 5, 5 (5S, 16S, 23S)\ntRNAs :: 38\nncRNAs :: 3\nPseudo Genes (total) :: 19\nCDSs (without protein) :: 19\nPseudo Genes (ambiguous residues) :: 0 of 19\nPseudo Genes (frameshifted) :: 0 of 19\nPseudo Genes (incomplete) :: 16 of 19\nPseudo Genes (internal stop) :: 3 of 19\nCRISPR Arrays :: 1\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
Germany: Black Forest (Schwarzwald), Baden-Wuertemberg
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: protein motif:HMM:NF012798.2
GO:0015074 - DNA integration [Evidence IEA]; GO:0006310 - DNA recombination [Evidence IEA]
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:TIGR01784.1
Rpn family recombination-promoting nuclease/putative transposase
COORDINATES: protein motif:HMM:NF024553.2
COORDINATES: protein motif:HMM:NF024991.2
COORDINATES: protein motif:HMM:NF041492.1
COORDINATES: protein motif:HMM:NF021897.2
type IV secretion system DNA-binding domain-containing protein
COORDINATES: protein motif:HMM:TIGR01056.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0003916 - DNA topoisomerase activity [Evidence IEA]
GO:0006265 - DNA topological change [Evidence IEA]
COORDINATES: protein motif:HMM:NF040179.1
COORDINATES: protein motif:HMM:NF016820.2
COORDINATES: similar to AA sequence:RefSeq:WP_016647500.1
COORDINATES: protein motif:HMM:NF013618.2
lytic transglycosylase domain-containing protein
COORDINATES: protein motif:HMM:NF015688.2
COORDINATES: protein motif:HMM:NF015487.2
TrbG/VirB9 family P-type conjugative transfer protein
COORDINATES: protein motif:HMM:NF016238.2
COORDINATES: protein motif:HMM:TIGR02783.1
GO:0009291 - unidirectional conjugation [Evidence IEA]
P-type conjugative transfer protein TrbL
COORDINATES: protein motif:HMM:NF021981.2
GO:0030288 - outer membrane-bounded periplasmic space [Evidence IEA]
GO:0008233 - peptidase activity [Evidence IEA]
conjugative transfer signal peptidase TraF
COORDINATES: protein motif:HMM:NF012632.2
COORDINATES: protein motif:HMM:NF024675.2
COORDINATES: protein motif:HMM:NF019846.2