ORCID Profile
0000-0002-6100-1790
Current Organisation
University of Western Australia
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Publisher: Wiley
Date: 10-10-2020
DOI: 10.1111/PBI.13262
Publisher: CSIRO Publishing
Date: 2018
DOI: 10.1071/CP17214
Abstract: Plant disease-resistance genes play a critical role in providing resistance against pathogens. The largest family of resistance genes are the nucleotide-binding site (NBS) and leucine-rich repeat (LRR) genes. They are classified into two major subfamilies, toll/interleukin-1 receptor (TIR)-NBS-LRR (TNL) and coiled-coil (CC)-NBS-LRR (CNL) proteins. We have identified and characterised 641 NBS-LRR genes in Brassica napus, 249 in B. rapa and 443 in B. oleracea. A ratio of 1 : 2 of CNL : TNL genes was found in the three species. Domain structure analysis revealed that 57% of the NBS-LRR genes are typical resistance genes and contain all three domains (TIR/CC, NBS, LRR), whereas the remaining genes are partially deleted or truncated. Of the NBS-LRR genes, 59% were found to be physically clustered, and in idual genes involved in clusters were more polymorphic than those not clustered. Of the NBS-LRR genes in B. napus, 50% were identified as duplicates, reflecting a high level of genomic duplication and rearrangement. Comparative analysis between B. napus and its progenitor species indicated that % of NBS-LRR genes are conserved in B. napus. This study provides a valuable resource for the identification and characterisation of candidate NBS-LRR genes.
Publisher: Oxford University Press (OUP)
Date: 12-08-2020
DOI: 10.1104/PP.20.00835
Publisher: Wiley
Date: 19-08-2022
DOI: 10.1111/NPH.17658
Publisher: Wiley
Date: 10-01-2018
DOI: 10.1111/PBI.12867
Publisher: Wiley
Date: 11-07-2023
DOI: 10.1111/PBI.14116
Abstract: Brassica rapa is grown worldwide as economically important vegetable and oilseed crop. However, its production is challenged by yield‐limiting pathogens. The sustainable control of these pathogens mainly relies on the deployment of genetic resistance primarily driven by resistance gene analogues (RGAs). While several studies have identified RGAs in B. rapa , these were mainly based on a single genome reference and do not represent the full range of RGA ersity in B. rapa . In this study, we utilized the B. rapa pangenome, constructed from 71 lines encompassing 12 morphotypes, to describe a comprehensive repertoire of RGAs in B. rapa . We show that 309 RGAs were affected by presence‐absence variation (PAV) and 223 RGAs were missing from the reference genome. The transmembrane leucine‐rich repeat (TM‐LRR) RGA class had more core gene types than variable genes, while the opposite was observed for nucleotide‐binding site leucine‐rich repeats (NLRs). Comparative analysis with the B. napus pangenome revealed significant RGA conservation (93%) between the two species. We identified 138 candidate RGAs located within known B. rapa disease resistance QTL, of which the majority were under negative selection. Using blackleg gene homologues, we demonstrated how these genes in B. napus were derived from B. rapa . This further clarifies the genetic relationship of these loci, which may be useful in narrowing‐down candidate blackleg resistance genes. This study provides a novel genomic resource towards the identification of candidate genes for breeding disease resistance in B. rapa and its relatives.
Publisher: Springer Science and Business Media LLC
Date: 12-2015
DOI: 10.1007/S12041-015-0560-7
Abstract: Silymarin is a flavonoid compound derived from milk thistle (Silybum marianum) seeds which has several pharmacological applications. Chalcone synthase (CHS) is a key enzyme in the biosynthesis of flavonoids thereby, the identification of CHS encoding genes in milk thistle plant can be of great importance. In the current research, fragments of CHS genes were lified using degenerate primers based on the conserved parts of Asteraceae CHS genes, and then cloned and sequenced. Analysis of the resultant nucleotide and deduced amino acid sequences led to the identification of two different members of CHS gene family,SmCHS1 and SmCHS2. Third member, full-length cDNA (SmCHS3) was isolated by rapid lification of cDNA ends (RACE), whose open reading frame contained 1239 bp including exon 1 (190 bp) and exon 2 (1049 bp), encoding 63 and 349 amino acids, respectively. In silico analysis of SmCHS3 sequence contains all the conserved CHS sites and shares high homology with CHS proteins from other plants.Real-time PCR analysis indicated that SmCHS1 and SmCHS3 had the highest transcript level in petals in the early flowering stage and in the stem of five upper leaves, followed by five upper leaves in the mid-flowering stage which are most probably involved in anthocyanin and silymarin biosynthesis.
Publisher: Wiley
Date: 15-10-2019
DOI: 10.1111/PBI.13015
Location: Iran (Islamic Republic of)
Location: Iran (Islamic Republic of)
No related grants have been discovered for Soodeh Tirnaz.