Parween S

References (2)

Title : Draft genome sequencing and secretome analysis of fungal phytopathogen Ascochyta rabiei provides insight into the necrotrophic effector repertoire - Verma_2016_Sci.Rep_6_24638
Author(s) : Verma S , Gazara RK , Nizam S , Parween S , Chattopadhyay D , Verma PK
Ref : Sci Rep , 6 :24638 , 2016
Abstract : Constant evolutionary pressure acting on pathogens refines their molecular strategies to attain successful pathogenesis. Recent studies have shown that pathogenicity mechanisms of necrotrophic fungi are far more intricate than earlier evaluated. However, only a few studies have explored necrotrophic fungal pathogens. Ascochyta rabiei is a necrotrophic fungus that causes devastating blight disease of chickpea (Cicer arietinum). Here, we report a 34.6 megabase draft genome assembly of A. rabiei. The genome assembly covered more than 99% of the gene space and 4,259 simple sequence repeats were identified in the assembly. A total of 10,596 high confidence protein-coding genes were predicted which includes a large and diverse inventory of secretory proteins, transporters and primary and secondary metabolism enzymes reflecting the necrotrophic lifestyle of A. rabiei. A wide range of genes encoding carbohydrate-active enzymes capable for degradation of complex polysaccharides were also identified. Comprehensive analysis predicted a set of 758 secretory proteins including both classical and non-classical secreted proteins. Several of these predicted secretory proteins showed high cysteine content and numerous tandem repeats. Together, our analyses would broadly expand our knowledge and offer insights into the pathogenesis and necrotrophic lifestyle of fungal phytopathogens.
ESTHER : Verma_2016_Sci.Rep_6_24638
PubMedSearch : Verma_2016_Sci.Rep_6_24638
PubMedID: 27091329
Gene_locus related to this paper: didra-a0a162vf33 , didra-a0a162w3h8 , didra-a0a162wlb9 , didra-a0a162wpi1 , didra-a0a162xw12 , didra-a0a162y9j3 , didra-a0a162yh98 , didra-a0a163a9b7 , didra-a0a163akw2 , didra-a0a163ana9 , didra-a0a163b1b6 , didra-a0a163b4m8 , didra-a0a163bnc3 , didra-a0a163cl26 , didra-a0a163cy94 , didra-a0a163d5r6 , didra-a0a163dil1 , didra-a0a163ekx7 , didra-a0a163f365 , didra-a0a163f846 , didra-a0a163fb98 , didra-a0a163fym5 , didra-a0a163g5c5 , didra-a0a163lvf3 , didra-a0a163met1 , didra-a0a163mhi9 , didra-a0a163mjg9 , didra-a0a163mlk1 , didra-a0a162wpr0 , didra-a0a162zv92 , didra-a0a163di22 , didra-a0a163cx35

Title : An advanced draft genome assembly of a desi type chickpea (Cicer arietinum L.) - Parween_2015_Sci.Rep_5_12806
Author(s) : Parween S , Nawaz K , Roy R , Pole AK , Venkata Suresh B , Misra G , Jain M , Yadav G , Parida SK , Tyagi AK , Bhatia S , Chattopadhyay D
Ref : Sci Rep , 5 :12806 , 2015
Abstract : Chickpea (Cicer arietinum L.) is an important pulse legume crop. We previously reported a draft genome assembly of the desi chickpea cultivar ICC 4958. Here we report an advanced version of the ICC 4958 genome assembly (version 2.0) generated using additional sequence data and an improved genetic map. This resulted in 2.7-fold increase in the length of the pseudomolecules and substantial reduction of sequence gaps. The genome assembly covered more than 94% of the estimated gene space and predicted the presence of 30,257 protein-coding genes including 2230 and 133 genes encoding potential transcription factors (TF) and resistance gene homologs, respectively. Gene expression analysis identified several TF and chickpea-specific genes with tissue-specific expression and displayed functional diversification of the paralogous genes. Pairwise comparison of pseudomolecules in the desi (ICC 4958) and the earlier reported kabuli (CDC Frontier) chickpea assemblies showed an extensive local collinearity with incongruity in the placement of large sequence blocks along the linkage groups, apparently due to use of different genetic maps. Single nucleotide polymorphism (SNP)-based mining of intra-specific polymorphism identified more than four thousand SNPs differentiating a desi group and a kabuli group of chickpea genotypes.
ESTHER : Parween_2015_Sci.Rep_5_12806
PubMedSearch : Parween_2015_Sci.Rep_5_12806
PubMedID: 26259924
Gene_locus related to this paper: cicar-a0a1s2xzs0 , cicar-a0a1s2z0j5 , cicar-a0a1s2y5k0 , cicar-a0a3q7ye44 , cicar-a0a1s3e4q5 , cicar-a0a1s2z2b7 , cicar-a0a1s2xzw3 , cicar-a0a1s2y0c1 , cicar-a0a1s2yix9 , cicar-a0a1s2xv47 , cicar-a0a1s2ykn9 , cicar-a0a1s2yak2