Journal: Frontiers in Microbiology

Article Title: Comparative Genomic Analysis of Xanthomonas campestris pv. campestris Isolates BJSJQ20200612 and GSXT20191014 Provides Novel Insights Into Their Genetic Variability and Virulence

doi: 10.3389/fmicb.2022.833318

Figure Lengend Snippet: Genome features of BJSJQ20200612 and GSXT20191014 and other sequenced Xcc strains.

Article Snippet: The average G + C content of the genome is 64.99 and 65.29% of the BJSJQ20200612 and GSXT20191014 genomes, respectively, which is similar to HRIW 3811 (65.1%), B100 (65%), CFBP 1869 (65%), ATCC 33913 (65.1%), CFBP 5817 (65.2%), and Xcc 8004 (64.94%) ( ).

Techniques:

Journal: Frontiers in Microbiology

Article Title: Comparative Genomic Analysis of Xanthomonas campestris pv. campestris Isolates BJSJQ20200612 and GSXT20191014 Provides Novel Insights Into Their Genetic Variability and Virulence

doi: 10.3389/fmicb.2022.833318

Figure Lengend Snippet: Multiple alignments of the whole genome sequence of Xcc strains by Mauve (version 2.4.0) and the development of molecular markers. (A) Alignment of the whole sequence of eight Xcc strains (B100, HRIW 3811, CFBP 1869, ATCC 33913, CFBP 5817, and Xcc 8004). HRIW 3811 was used as the reference genome. Each genome is laid out horizontally with homologous segments outlined as colored rectangular solid boxes. The syntenic blocks are connected among the strains with lines. The rectangular boxes (red outline) indicate the positions of inserted sequence in the genome. (B) An insertion sequence of BJSJQ20200612 isolate relative to other Xcc strains are set with the line diagram. A 35,024 bp large insertion was located from 101,595 to 136,619 of the genomic sequence. XccXTZ-10-F/R were the GSXT20191014-specific molecular markers. (C) An IS5 family transposase insertion in the GSXT20191014 isolate compared to other Xcc strains are shown with the line diagram. XccSJQ-62-F/R were the BJSJQ20200612-specific molecular marker. The GenBank accession numbers are NZ_CP025750 for HRIW 3811, AM920689 for B100, NZ_CM002545 for CFBP 1869, AE008922 for ATCC 33913, NZ_CM002673 for CFBP5817 and NC_007086 for Xcc 8004, respectively. (D) The usability of molecular markers XccSJQ-62 and XccXTZ-10 were tested by PCR using the genomic DNA of Xcc strains (HRIW 3811, HRIW 3849A, HRIW 5212, HRIW 1279A, HRIW 3880, HRIW 6181, and Xcc 8004). DNA concentration of all samples was 50 ng/μl. Lane M: 2k plus DNA ladder was used as the size marker. BJSJQ20200612 and GSXT20191014 were used as the positive control on the upper and lower panel, respectively.

Article Snippet: The average G + C content of the genome is 64.99 and 65.29% of the BJSJQ20200612 and GSXT20191014 genomes, respectively, which is similar to HRIW 3811 (65.1%), B100 (65%), CFBP 1869 (65%), ATCC 33913 (65.1%), CFBP 5817 (65.2%), and Xcc 8004 (64.94%) ( ).

Techniques: Sequencing, Marker, Concentration Assay, Positive Control

Journal: Biocatalysis and agricultural biotechnology

Article Title: Evaluation of Oxalobacter formigenes DSM 4420 biodegradation activity for high oxalate media content: An in vitro model

doi: 10.1016/j.bcab.2019.101378

Figure Lengend Snippet: In vitro growth and degradation of oxalate salt by different strains of lactic acid bacteria.

Article Snippet: Differences within-species or within-strains in oxalate degrading activity could be explained with physiological states of cells ( Turroni et al., 2010 ), acidic conditions and pre-adaption of cells with low levels of oxalate. (See ) fig ft0 fig mode=article f1 fig/graphic|fig/alternatives/graphic mode="anchored" m1 Open in a separate window Fig. 4. caption a7 Oxalobacter formigenes growth curve in media containing 25mmol/L sodium oxalate. table ft1 table-wrap mode="anchored" t5 caption a7 No. Microorganism Salt Initial = ]8concentration (mmol/L) Final concentration (mmol/L) % Incubation time Reference 1 L. plantarum ammonium oxalate 10 9.858 1.42 three days Campieri et al. (2001) 2 L. brevis ammonium oxalate 10 9.906 0.96 three days Campieri et al. (2001) 3 S. thermophiles ammonium oxalate 10 9.769 2.31 three days Campieri et al. (2001) 4 L. acidophilus ammonium oxalate 10 8.821 11.79 three days Campieri et al. (2001) 5 B. infantis ammonium oxalate 10 9.474 5.26 three days Campieri et al. (2001) 6 L. plantarum Sodium oxalate 20 20 0 three days Campieri et al. (2001) 7 L. brevis Sodium oxalate 20 19.854 0.73 three days Campieri et al. (2001) 8 S. thermophiles Sodium oxalate 20 19.388 3.06 three days Campieri et al. (2001) 9 L. acidophilus Sodium oxalate 20 19.318 3.41 three days Campieri et al. (2001) 10 B. infantis Sodium oxalate 20 19.564 2.18 three days Campieri et al. (2001) 11 L. fermentum TY12 potassium oxalate 10 4.52 54.8 five days Gomathi et al. (2014) 12 L. rhamnosus PB41 sodium oxalate 5 4 20 five days Turroni et al. (2007) 13 L. rhamnosus PB45 sodium oxalate 5 2.65 47 five days Turroni et al. (2007) 14 L. acidophilus ATCC 4356 sodium oxalate 25 12.756 48.94 four days Karamad et al., 2019 Open in a separate window In vitro growth and degradation of oxalate salt by different strains of lactic acid bacteria.

Techniques: In Vitro, Concentration Assay, Incubation