Draft genome sequence of a nitrate-reducing, o-phthalate degrading bacterium, Azoarcus sp. strain PA01T

25Citations
Citations of this article
18Readers
Mendeley users who have this article in their library.

This article is free to access.

Abstract

Azoarcus sp. strain PA01T belongs to the genus Azoarcus, of the family Rhodocyclaceae within the class Betaproteobacteria. It is a facultatively anaerobic, mesophilic, non-motile, Gram-stain negative, non-spore-forming, short rod-shaped bacterium that was isolated from a wastewater treatment plant in Constance, Germany. It is of interest because of its ability to degrade o-phthalate and a wide variety of aromatic compounds with nitrate as an electron acceptor. Elucidation of the o-phthalate degradation pathway may help to improve the treatment of phthalate-containing wastes in the future. Here, we describe the features of this organism, together with the draft genome sequence information and annotation. The draft genome consists of 4 contigs with 3,908,301 bp and an overall G + C content of 66.08 %. Out of 3,712 total genes predicted, 3,625 genes code for proteins and 87 genes for RNAs. The majority of the protein-encoding genes (83.51 %) were assigned a putative function while those remaining were annotated as hypothetical proteins.

Figures

  • Fig. 1 General characteristics of Azoarcus sp. strain PA01T. a Phase contrast micrograph of strain PA01T, b Scanning electron micrograph of strain PA01T, c Agarose gel (1 %) electrophoresis of isolated genomic DNA (gDNA) of PA01T. Lane 1, 1 kb DNA marker; lane 2, gDNA before RNase treatment; lane 3, high quality gDNA after RNase treatment
  • Table 1 Classification and general features of Azoarcus sp. strain PA01T according to the MIGS recommendations [28]
  • Fig. 2 Neighbor-joining phylogenetic tree generated using MEGA4 software package based on 16S rRNA gene sequences. The phylogenetic tree shows the exact position of strain PA01T and the three Azoarcus spp. (in bold) whose genome sequence are published, along with other representatives of the genus Azoarcus. The corresponding 16S rRNA gene accession numbers are given in parenthesis. Bootstrap values are calculated from 1000 repeats; bar, 0.02 substitutions per nucleotide position
  • Table 2 Project information
  • Fig. 3 Graphical representation of different scaffolds of the genome of Azoarcus sp. strain PA01T. a Graphical map of Azoarcus sp. PA01T genome_PA01_unitig_3_quiver.1. From bottom to top: Genes on forward strand (color by COG categories), Genes on reverse strand (color by COG categories), RNA genes (tRNAs green, rRNAs red, other RNAs black), GC content (black) and GC skew (purple). b Graphical map of Azoarcus sp. PA01T genome_PA01_unitig_0_quiver.2. From bottom to top: Genes on forward strand (color by COG categories), Genes on reverse strand (color by COG categories), RNA genes (tRNAs green, rRNAs red, other RNAs black), GC content (black) and GC skew (purple). c Graphical map of Azoarcus sp. PA01T genome_PA01_unitig_2_quiver.3. From bottom to top: Genes on forward strand (color by COG categories), Genes on reverse strand (color by COG categories), RNA genes (tRNAs green, rRNAs red, other RNAs black), GC content (black) and GC skew (purple). d Graphical map of Azoarcus sp. PA01T genome_PA01_unitig_1_quiver.4. From bottom to top: Genes on forward strand (color by COG categories), Genes on reverse strand (color by COG categories), RNA genes (tRNAs green, rRNAs red, other RNAs black), GC content (black) and GC skew (purple)
  • Table 3 Genome statistics
  • Table 4 Number of genes associated with general COG functional categories

References Powered by Scopus

Gene ontology: Tool for the unification of biology

32168Citations
N/AReaders
Get full text

MEGA4: Molecular Evolutionary Genetics Analysis (MEGA) software version 4.0

26050Citations
N/AReaders
Get full text

TRNAscan-SE: A program for improved detection of transfer RNA genes in genomic sequence

9191Citations
N/AReaders
Get full text

Cited by Powered by Scopus

Roles of different active metal-reducing bacteria in arsenic release from arsenic-contaminated paddy soil amended with biochar

145Citations
N/AReaders
Get full text

Microbial degradation of phthalates: biochemistry and environmental implications

130Citations
N/AReaders
Get full text

Transcriptional Activity of Arsenic-Reducing Bacteria and Genes Regulated by Lactate and Biochar during Arsenic Transformation in Flooded Paddy Soil

129Citations
N/AReaders
Get full text

Register to see more suggestions

Mendeley helps you to discover research relevant for your work.

Already have an account?

Cite

CITATION STYLE

APA

Junghare, M., Patil, Y., & Schink, B. (2015). Draft genome sequence of a nitrate-reducing, o-phthalate degrading bacterium, Azoarcus sp. strain PA01T. Standards in Genomic Sciences, 10(1). https://doi.org/10.1186/s40793-015-0079-9

Readers over time

‘15‘16‘17‘18‘19‘20‘21‘22‘2302468

Readers' Seniority

Tooltip

PhD / Post grad / Masters / Doc 10

83%

Lecturer / Post doc 1

8%

Researcher 1

8%

Readers' Discipline

Tooltip

Biochemistry, Genetics and Molecular Bi... 5

38%

Agricultural and Biological Sciences 4

31%

Environmental Science 3

23%

Nursing and Health Professions 1

8%

Save time finding and organizing research with Mendeley

Sign up for free
0