Apilactobacillus apisilvae strain SG5_A10 plasmid p2unnamed, complete sequence.
Bacteria; Firmicutes; Bacilli; Lactobacillales; Lactobacillaceae; Apilactobacillus.
Apilactobacillus apisilvae sp. nov., Nicolia spurrieriana gen. nov. sp. nov., Bombilactobacillus folatiphilus sp. nov. and Bombilactobacillus thymidiniphilus sp. nov., four new lactic acid bacterial isolates from stingless bees Tetragonula carbonaria and Austroplebeia australis
Submitted (11-MAR-2022) Wine Science, The University of Adelaide, PMB 1, Glen Osmond, South Australia 5064, Australia
REFSEQ INFORMATION: The reference sequence is identical to\nCP093364.1.\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 Date :: NOV-2020\nAssembly Method :: Smrtlink v. 9.0\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 11482x\nSequencing Technology :: PacBio Sequel II\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 10/10/2022 08:24:36\nAnnotation Pipeline :: NCBI Prokaryotic Genome\n Annotation Pipeline (PGAP)\nAnnotation Method :: Best-placed reference protein\n set; GeneMarkS-2+\nAnnotation Software revision :: 6.3\nFeatures Annotated :: Gene; CDS; rRNA; tRNA; ncRNA;\n repeat_region\nGenes (total) :: 1,576\nCDSs (total) :: 1,495\nGenes (coding) :: 1,483\nCDSs (with protein) :: 1,483\nGenes (RNA) :: 81\nrRNAs :: 5, 5, 5 (5S, 16S, 23S)\ncomplete rRNAs :: 5, 5, 5 (5S, 16S, 23S)\ntRNAs :: 63\nncRNAs :: 3\nPseudo Genes (total) :: 12\nCDSs (without protein) :: 12\nPseudo Genes (ambiguous residues) :: 0 of 12\nPseudo Genes (frameshifted) :: 5 of 12\nPseudo Genes (incomplete) :: 9 of 12\nPseudo Genes (internal stop) :: 1 of 12\nPseudo Genes (multiple problems) :: 3 of 12\nCRISPR Arrays :: 1\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
type strain of Apilactobacillus apisilvae
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: similar to AA sequence:RefSeq:WP_003672124.1
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:NF015550.2
COORDINATES: similar to AA sequence:RefSeq:WP_015474432.1
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
PBSX family phage terminase large subunit
COORDINATES: protein motif:HMM:NF016988.2
COORDINATES: protein motif:HMM:TIGR01641.1
GO:0044423 - virion component [Evidence IEA]
GO:0016032 - viral process [Evidence IEA]; GO:0019068 - virion assembly [Evidence IEA]
COORDINATES: protein motif:HMM:NF018515.2
COORDINATES: similar to AA sequence:RefSeq:WP_015474424.1
COORDINATES: protein motif:HMM:NF016754.2
COORDINATES: protein motif:HMM:NF016845.2
phage tail sheath subtilisin-like domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_008473249.1
COORDINATES: protein motif:HMM:NF020464.2
COORDINATES: protein motif:HMM:NF040129.1
COORDINATES: protein motif:HMM:NF022300.2
COORDINATES: similar to AA sequence:RefSeq:WP_015474411.1
COORDINATES: similar to AA sequence:RefSeq:WP_015981478.1
COORDINATES: protein motif:HMM:NF021583.2
COORDINATES: protein motif:HMM:NF012271.2
fibronectin type III domain-containing protein
COORDINATES: protein motif:HMM:NF021229.2
COORDINATES: protein motif:HMM:TIGR01593.1
COORDINATES: protein motif:HMM:TIGR01673.1
GO:0034290 - holin activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF013357.2
GO:0003796 - lysozyme activity [Evidence IEA]
GO:0016998 - cell wall macromolecule catabolic process [Evidence IEA]; GO:0009253 - peptidoglycan catabolic process [Evidence IEA]
COORDINATES: protein motif:HMM:NF025612.2
COORDINATES: protein motif:HMM:NF036540.2
GO:0003700 - DNA-binding transcription factor activity [Evidence IEA]
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_002412533.1
COORDINATES: protein motif:HMM:NF019416.2
COORDINATES: similar to AA sequence:RefSeq:WP_005688149.1
COORDINATES: protein motif:HMM:NF014133.2
COORDINATES: protein motif:HMM:NF013540.2
helix-turn-helix transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_019236189.1
COORDINATES: protein motif:HMM:NF018914.2
helix-turn-helix domain-containing protein
COORDINATES: protein motif:HMM:NF025027.2
COORDINATES: protein motif:HMM:NF028094.2
COORDINATES: protein motif:HMM:TIGR01636.1