ERIC-PCR based genetic variability and their relationship with pathogenic variability of <em>Xanthomonas campestris</em> pv. <em>Campestris</em> isolates of West Bengal, India

620-626Black rot of cabbage caused by Xanthomonas campestris pv. campestris (Xcc) is one of the most devastating diseases of cabbage causing 10-50% loss consistently. For determining genetic diversity amplification of enterobacterial repetitive intergenic consensus (ERIC-PCR) was reported to be reliable rapid and highly discriminatory. Therefore, current study was undertaken to determine genetic variability of 31 Xcc and five other xanthomonads collected from West Bengal using ERIC-PCR. Based on virulence on cabbage isolate 1.3W and 2.2 were found to be most virulent whereas isolates ND,1,2,6, and 3.1 were least virulent. Based on the ERIC-PCR fingerprints Xcc isolates were clearly distinguish from other xanthomonads. Several bands were identified unique to Xcc or other xanthomonads which can be used as markers for detection at the species and pathovar level. The grouping of the isolates based on ERIC-PCR was in accordance with the virulence of the isolates on cabbage. Genomic fingerprinting with ERIC-PCR revealed groups that did not represent significant relationship between isolates and geographical location isolates and host. However, it did demonstrate existence of genetic differences within the West Bengal X. campestris pv. Campestris population indicating that it is not a similar clonal population of the same genetic background

List of primers and amplicon size for Pmx-PCR used in phylotyping of RSSC.

List of primers and amplicon size for Pmx-PCR used in phylotyping of RSSC.</p

Biovar determination of <i>R</i>.

solanacearum isolates based on the acid production through utilization of various carbohydrates.</p

Dendogram constructed using partial 16S rDNA sequences showing phylogenetic relationships of 36 isolates of RSSC from West Bengal with reference sequences from various phylotypes of <i>R</i>. <i>solanacearum</i>.

The phylogenetic tree was constructed using Neighbour joining method using MEGA7 with sum of branch length = 0.34. Bootstrap values showing percentage of replicate trees with which the associated taxa clustered together are shown next to the branches.</p

Map of West Bengal showing relative abundance of sequevars in different agroclimatic zones of West Bengal.

Reprinted from [Redefined six Agro-climatic sub-regions of West Bengal,India] under a CC BY license, with permission from [Pranab 2018], original copyright [2001].</p

Comparison of genetic properties of different loci used in MLSA for the RSSC isolates from West Bengal (C1), worldwide (C2) and C1 and C2 combined (C3).

Comparison of genetic properties of different loci used in MLSA for the RSSC isolates from West Bengal (C1), worldwide (C2) and C1 and C2 combined (C3).</p

Phylogenetic relationship of partial <i>egl</i> sequences (655 nucleotides) of 36 isolates of <i>R</i>. <i>solanacearum</i> from West Bengal and 90 reference strains belonging to all phylotypes obtained from NCBI databases.

Tree was constructed by MEGA 7 using Neighbour joining method and algorithm of Jukes and Cantor (1969). Numbers at branchpoints indicate percent bootstrap support for 1,000 iterations. The optimal tree with the sum of branch length = 0.20900382 is shown.</p

Percolation network generated by SIDIER module diversified 91 haplotypes from 112 sequences into 3 groups with percolation threshold of 0.58.

Percolation network generated by SIDIER module diversified 91 haplotypes from 112 sequences into 3 groups with percolation threshold of 0.58.</p

Partial amplification of endoglucanase gene (<i>egl</i>) with EglF-EglR primer pairs producing approximately 850 bp fragment. Lane L: 10?0 bp ladder.

(DOCX)</p

Haplotype frequency among the populations of five agro climatic zones, based on MLSA (the name of the haplotypes are one of the representative isolates within the haplotypes).

Haplotype frequency among the populations of five agro climatic zones, based on MLSA (the name of the haplotypes are one of the representative isolates within the haplotypes).</p