Candidatus Vallotia cooleyia isolate 19-005_Vallotia plasmid unnamed, complete sequence.
Bacteria; Pseudomonadota; Betaproteobacteria; Burkholderiales; Burkholderiaceae; Candidatus Vallotia.
Transitional genomes and nutritional role reversals identified for dual symbionts of adelgids (Aphidoidea: Adelgidae)
Submitted (07-JAN-2020) Department of Entomology, University of Georgia, 120 Cedar St, 419 Biological Sciences Building, Athens, GA 30602, USA
REFSEQ INFORMATION: The reference sequence is identical to\nCP047397.1.\nAnnotated using prokka 1.14.0 from\nhttps://github.com/tseemann/prokka.\nBacteria and source DNA available from Carol von Dohlen. Department\nof Biology, 5305 Old Main Hill, Utah State University, Logan, Utah\n84322 USA.\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 :: 2019\nAssembly Method :: Flye v. 2.6\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 1049.0x\nSequencing Technology :: PacBio Sequel II; Illumina NextSeq\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 03/23/2023 03:51:24\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) :: 891\nCDSs (total) :: 836\nGenes (coding) :: 796\nCDSs (with protein) :: 796\nGenes (RNA) :: 55\nrRNAs :: 3, 3, 3 (5S, 16S, 23S)\ncomplete rRNAs :: 3, 3, 3 (5S, 16S, 23S)\ntRNAs :: 43\nncRNAs :: 3\nPseudo Genes (total) :: 40\nCDSs (without protein) :: 40\nPseudo Genes (ambiguous residues) :: 0 of 40\nPseudo Genes (frameshifted) :: 16 of 40\nPseudo Genes (incomplete) :: 29 of 40\nPseudo Genes (internal stop) :: 12 of 40\nPseudo Genes (multiple problems) :: 13 of 40\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
USA:Idaho, Franklin county, ID-36 through Emigration Canyon
COORDINATES: similar to AA sequence:RefSeq:WP_013428658.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_013428657.1
GO:0009338 - exodeoxyribonuclease V complex [Evidence IEA]
GO:0008854 - exodeoxyribonuclease V activity [Evidence IEA]
GO:0006310 - DNA recombination [Evidence IEA]; GO:0006281 - DNA repair [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_013428656.1
COORDINATES: similar to AA sequence:RefSeq:WP_013697214.1
GO:0051536 - iron-sulfur cluster binding [Evidence IEA]
GO:0009228 - thiamine biosynthetic process [Evidence IEA]
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]
COORDINATES: similar to AA sequence:RefSeq:WP_004202502.1
GO:0022627 - cytosolic small ribosomal subunit [Evidence IEA]; GO:0000314 - organellar small ribosomal subunit [Evidence IEA]
GO:0003735 - structural constituent of ribosome [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011300619.1
COORDINATES: similar to AA sequence:RefSeq:WP_013428378.1
COORDINATES: similar to AA sequence:RefSeq:WP_013428377.1
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
H-NS family nucleoid-associated regulatory protein
COORDINATES: similar to AA sequence:RefSeq:WP_006397314.1
COORDINATES: similar to AA sequence:RefSeq:WP_017329783.1
GO:0102039 - NADH-dependent peroxiredoxin activity [Evidence IEA]
GO:0006979 - response to oxidative stress [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_013429005.1
COORDINATES: similar to AA sequence:RefSeq:WP_013429003.1
COORDINATES: similar to AA sequence:RefSeq:WP_013429001.1
COORDINATES: similar to AA sequence:RefSeq:WP_013429000.1
GO:0007059 - chromosome segregation [Evidence IEA]; GO:0000910 - cytokinesis [Evidence IEA]
ParB/RepB/Spo0J family partition protein
COORDINATES: similar to AA sequence:RefSeq:WP_013428999.1
COORDINATES: similar to AA sequence:RefSeq:WP_013428913.1
GO:0008897 - holo-[acyl-carrier-protein] synthase activity [Evidence IEA]; GO:0000287 - magnesium ion binding [Evidence IEA]
4'-phosphopantetheinyl transferase superfamily protein
COORDINATES: similar to AA sequence:RefSeq:WP_017329651.1
GO:0006812 - monoatomic cation transport [Evidence IEA]; GO:0055085 - transmembrane transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_015603023.1
GO:0051007 - squalene-hopene cyclase activity [Evidence IEA]
GO:0019746 - hopanoid biosynthetic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012563810.1
GO:0016767 - geranylgeranyl-diphosphate geranylgeranyltransferase activity [Evidence IEA]
GO:0016117 - carotenoid biosynthetic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_013428771.1
GO:0004370 - glycerol kinase activity [Evidence IEA]
GO:0006071 - glycerol metabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_010101791.1
COORDINATES: similar to AA sequence:RefSeq:WP_004550412.1
incomplete; partial in the middle of a contig; missing C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_018434607.1
GO:0004055 - argininosuccinate synthase activity [Evidence IEA]; GO:0005524 - ATP binding [Evidence IEA]; GO:0042803 - protein homodimerization activity [Evidence IEA]
GO:0006526 - arginine biosynthetic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_013428677.1
COORDINATES: similar to AA sequence:RefSeq:WP_011549519.1
GO:0003725 - double-stranded RNA binding [Evidence IEA]
GO:0006400 - tRNA modification [Evidence IEA]
tRNA (adenosine(37)-N6)-threonylcarbamoyltransferase complex dimerization subunit type 1 TsaB
COORDINATES: similar to AA sequence:RefSeq:WP_011205143.1
GO:0008999 - peptide-alanine-alpha-N-acetyltransferase activity [Evidence IEA]
GO:0036211 - protein modification process [Evidence IEA]; GO:0042254 - ribosome biogenesis [Evidence IEA]
ribosomal protein S18-alanine N-acetyltransferase
COORDINATES: similar to AA sequence:RefSeq:WP_013428674.1
COORDINATES: similar to AA sequence:RefSeq:WP_010104676.1
GO:0008902 - hydroxymethylpyrimidine kinase activity [Evidence IEA]; GO:0008972 - phosphomethylpyrimidine kinase activity [Evidence IEA]
bifunctional hydroxymethylpyrimidine kinase/phosphomethylpyrimidine kinase
COORDINATES: similar to AA sequence:RefSeq:WP_017331722.1
GO:0008784 - alanine racemase activity [Evidence IEA]
GO:0009252 - peptidoglycan biosynthetic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008350541.1
GO:0005506 - iron ion binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_006051235.1
frameshifted; internal stop; Derived by automated computational analysis using gene prediction method: Protein Homology.