Mir, Reyazul Rouf

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  • Mir, Reyazul Rouf (4)
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Author's Bibliography

Comprehensive meta-QTL analysis for dissecting the genetic architecture of stripe rust resistance in bread wheat

Kumar, Sandeep; Saini, Dinesh Kumar; Jan, Farkhandah; Jan, Sofora; Tahir, Mohd; Đalović, Ivica; Latković, Dragana; Khan, Mohd Anwar; Kuma, Sundeep; Vikas, V. K.; Kumar, Upendra; Kumar, Sundip; Dhaka, Narendra Singh; Dhankher, Om Parkash; Rustgi, Sachin; Mir, Reyazul Rouf

(Springer Nature, 2023)

TY  - JOUR
AU  - Kumar, Sandeep
AU  - Saini, Dinesh Kumar
AU  - Jan, Farkhandah
AU  - Jan, Sofora
AU  - Tahir, Mohd
AU  - Đalović, Ivica
AU  - Latković, Dragana
AU  - Khan, Mohd Anwar
AU  - Kuma, Sundeep
AU  - Vikas, V. K.
AU  - Kumar, Upendra
AU  - Kumar, Sundip
AU  - Dhaka, Narendra Singh
AU  - Dhankher, Om Parkash
AU  - Rustgi, Sachin
AU  - Mir, Reyazul Rouf
PY  - 2023
UR  - http://fiver.ifvcns.rs/handle/123456789/3562
AB  - Yellow or stripe rust, caused by the fungus Puccinia striiformis f. sp. tritici (Pst) is an important disease of wheat that threatens wheat production. Since developing resistant cultivars offers a viable solution for disease management, it is essential to understand the genetic basis of stripe rust resistance. In recent years, meta-QTL analysis of identified QTLs has gained popularity as a way to dissect the genetic architecture underpinning quantitative traits, including disease resistance. Systematic meta-QTL analysis involving 505 QTLs from 101 linkage-based interval mapping studies was conducted for stripe rust resistance in wheat. For this purpose, publicly available high-quality genetic maps were used to create a consensus linkage map involving 138,574 markers. This map was used to project the QTLs and conduct meta-QTL analysis. A total of 67 important meta-QTLs (MQTLs) were identified which were refined to 29 high-confidence MQTLs. The confidence interval (CI) of MQTLs ranged from 0 to 11.68 cM with a mean of 1.97 cM. The mean physical CI of MQTLs was 24.01 Mb, ranging from 0.0749 to 216.23 Mb per MQTL. As many as 44 MQTLs colocalized with marker–trait associations or SNP peaks associated with stripe rust resistance in wheat. Some MQTLs also included the following major genes- Yr5, Yr7, Yr16, Yr26, Yr30, Yr43, Yr44, Yr64, YrCH52, and YrH52. Candidate gene mining in high-confidence MQTLs identified 1,562 gene models. Examining these gene models for differential expressions yielded 123 differentially expressed genes, including the 59 most promising CGs. We also studied how these genes were expressed in wheat tissues at different phases of development
PB  - Springer Nature
T2  - BMC Genomics
T1  - Comprehensive meta-QTL analysis for dissecting the genetic architecture of stripe rust resistance in bread wheat
SP  - 259
VL  - 24
DO  - 10.1186/s12864-023-09336-y
ER  - 
@article{
author = "Kumar, Sandeep and Saini, Dinesh Kumar and Jan, Farkhandah and Jan, Sofora and Tahir, Mohd and Đalović, Ivica and Latković, Dragana and Khan, Mohd Anwar and Kuma, Sundeep and Vikas, V. K. and Kumar, Upendra and Kumar, Sundip and Dhaka, Narendra Singh and Dhankher, Om Parkash and Rustgi, Sachin and Mir, Reyazul Rouf",
year = "2023",
abstract = "Yellow or stripe rust, caused by the fungus Puccinia striiformis f. sp. tritici (Pst) is an important disease of wheat that threatens wheat production. Since developing resistant cultivars offers a viable solution for disease management, it is essential to understand the genetic basis of stripe rust resistance. In recent years, meta-QTL analysis of identified QTLs has gained popularity as a way to dissect the genetic architecture underpinning quantitative traits, including disease resistance. Systematic meta-QTL analysis involving 505 QTLs from 101 linkage-based interval mapping studies was conducted for stripe rust resistance in wheat. For this purpose, publicly available high-quality genetic maps were used to create a consensus linkage map involving 138,574 markers. This map was used to project the QTLs and conduct meta-QTL analysis. A total of 67 important meta-QTLs (MQTLs) were identified which were refined to 29 high-confidence MQTLs. The confidence interval (CI) of MQTLs ranged from 0 to 11.68 cM with a mean of 1.97 cM. The mean physical CI of MQTLs was 24.01 Mb, ranging from 0.0749 to 216.23 Mb per MQTL. As many as 44 MQTLs colocalized with marker–trait associations or SNP peaks associated with stripe rust resistance in wheat. Some MQTLs also included the following major genes- Yr5, Yr7, Yr16, Yr26, Yr30, Yr43, Yr44, Yr64, YrCH52, and YrH52. Candidate gene mining in high-confidence MQTLs identified 1,562 gene models. Examining these gene models for differential expressions yielded 123 differentially expressed genes, including the 59 most promising CGs. We also studied how these genes were expressed in wheat tissues at different phases of development",
publisher = "Springer Nature",
journal = "BMC Genomics",
title = "Comprehensive meta-QTL analysis for dissecting the genetic architecture of stripe rust resistance in bread wheat",
pages = "259",
volume = "24",
doi = "10.1186/s12864-023-09336-y"
}
Kumar, S., Saini, D. K., Jan, F., Jan, S., Tahir, M., Đalović, I., Latković, D., Khan, M. A., Kuma, S., Vikas, V. K., Kumar, U., Kumar, S., Dhaka, N. S., Dhankher, O. P., Rustgi, S.,& Mir, R. R.. (2023). Comprehensive meta-QTL analysis for dissecting the genetic architecture of stripe rust resistance in bread wheat. in BMC Genomics
Springer Nature., 24, 259.
https://doi.org/10.1186/s12864-023-09336-y
Kumar S, Saini DK, Jan F, Jan S, Tahir M, Đalović I, Latković D, Khan MA, Kuma S, Vikas VK, Kumar U, Kumar S, Dhaka NS, Dhankher OP, Rustgi S, Mir RR. Comprehensive meta-QTL analysis for dissecting the genetic architecture of stripe rust resistance in bread wheat. in BMC Genomics. 2023;24:259.
doi:10.1186/s12864-023-09336-y .
Kumar, Sandeep, Saini, Dinesh Kumar, Jan, Farkhandah, Jan, Sofora, Tahir, Mohd, Đalović, Ivica, Latković, Dragana, Khan, Mohd Anwar, Kuma, Sundeep, Vikas, V. K., Kumar, Upendra, Kumar, Sundip, Dhaka, Narendra Singh, Dhankher, Om Parkash, Rustgi, Sachin, Mir, Reyazul Rouf, "Comprehensive meta-QTL analysis for dissecting the genetic architecture of stripe rust resistance in bread wheat" in BMC Genomics, 24 (2023):259,
https://doi.org/10.1186/s12864-023-09336-y . .
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Delineating Marker-trait Associations for Fusarium Wilt in Chickpea using Axiom® Cicer SNP Array

Rasool, Bushra; Summuna, Baby; Đalović, Ivica; Shah, Tariq Ahmed; Sheikh, Parveez Ahmed; Gupta, Sachin; Tyagi, Sandhya; Bilal, Sierra; Varshney, Rajeev K.; Abidi, Ishfaq; Kumar, Jitendra; Penmetsa, Varma; Khanday, Imtiyaz; Kumar, Upendra; Sofi, Parvaze Ahmad; Khan, Mohd Anwar; Bhat, Mohd Ashraf; Wani, Fehim Jeelani; Thudi, Mahendar; Mir, Reyazul Rouf

(The American Phytopathological Society (APS) Publications, 2023)

TY  - JOUR
AU  - Rasool, Bushra
AU  - Summuna, Baby
AU  - Đalović, Ivica
AU  - Shah, Tariq Ahmed
AU  - Sheikh, Parveez Ahmed
AU  - Gupta, Sachin
AU  - Tyagi, Sandhya
AU  - Bilal, Sierra
AU  - Varshney, Rajeev K.
AU  - Abidi, Ishfaq
AU  - Kumar, Jitendra
AU  - Penmetsa, Varma
AU  - Khanday, Imtiyaz
AU  - Kumar, Upendra
AU  - Sofi, Parvaze Ahmad
AU  - Khan, Mohd Anwar
AU  - Bhat, Mohd Ashraf
AU  - Wani, Fehim Jeelani
AU  - Thudi, Mahendar
AU  - Mir, Reyazul Rouf
PY  - 2023
UR  - http://fiver.ifvcns.rs/handle/123456789/3385
AB  - Fusarium wilt (FW) caused by the Fusarium oxysporum f. sp. ciceri is a devastating disease of chickpea (Cicer arietinum L.). To identify promising resistant genotypes and genomic loci for FW resistance, a core set of 179 genotypes of chickpea was tested for FW reactions at seedling and reproductive stages under field as well as controlled conditions in the greenhouse. Our results revealed that at seedling stage, most of the genotypes were found resistant whereas, at the reproductive stage majority of the genotypes were found susceptible. Genotyping using a 50K Axiom®Cicer SNP Array and trait data of FW together led to the identification of 26 significant (p≤E-05) marker-trait associations (MTAs) for FW resistance. Among 26 MTAs, 12 were identified using trait data recorded in the field (3 at seedling and 9 at reproductive stage) and 14 MTAs were identified using trait data recorded under controlled conditions in the greenhouse (6 at seedling and 8 at reproductive stage). The phenotypic variation explained by these MTAs varied from 11.75 to 15.86% with an average of 13.77%. Five MTAs were classified as major, explaining more than 15% phenotypic variation for FW and two MTAs were declared stable, being identified in either two environments or at two growth stages. One of the promising stable and major MTAs (Affx_123280060) detected in field conditions at reproductive stage was also detected in greenhouse conditions at seedling and reproductive stages. The stable and major (>15% PVE) MTAs can be used in chickpea breeding programmes.
PB  - The American Phytopathological Society (APS) Publications
T2  - Phytopathology
T1  - Delineating Marker-trait Associations for Fusarium Wilt in Chickpea using Axiom® Cicer SNP Array
DO  - 10.1094/PHYTO-05-22-0164-FI
DO  - 1943-7684
ER  - 
@article{
author = "Rasool, Bushra and Summuna, Baby and Đalović, Ivica and Shah, Tariq Ahmed and Sheikh, Parveez Ahmed and Gupta, Sachin and Tyagi, Sandhya and Bilal, Sierra and Varshney, Rajeev K. and Abidi, Ishfaq and Kumar, Jitendra and Penmetsa, Varma and Khanday, Imtiyaz and Kumar, Upendra and Sofi, Parvaze Ahmad and Khan, Mohd Anwar and Bhat, Mohd Ashraf and Wani, Fehim Jeelani and Thudi, Mahendar and Mir, Reyazul Rouf",
year = "2023",
abstract = "Fusarium wilt (FW) caused by the Fusarium oxysporum f. sp. ciceri is a devastating disease of chickpea (Cicer arietinum L.). To identify promising resistant genotypes and genomic loci for FW resistance, a core set of 179 genotypes of chickpea was tested for FW reactions at seedling and reproductive stages under field as well as controlled conditions in the greenhouse. Our results revealed that at seedling stage, most of the genotypes were found resistant whereas, at the reproductive stage majority of the genotypes were found susceptible. Genotyping using a 50K Axiom®Cicer SNP Array and trait data of FW together led to the identification of 26 significant (p≤E-05) marker-trait associations (MTAs) for FW resistance. Among 26 MTAs, 12 were identified using trait data recorded in the field (3 at seedling and 9 at reproductive stage) and 14 MTAs were identified using trait data recorded under controlled conditions in the greenhouse (6 at seedling and 8 at reproductive stage). The phenotypic variation explained by these MTAs varied from 11.75 to 15.86% with an average of 13.77%. Five MTAs were classified as major, explaining more than 15% phenotypic variation for FW and two MTAs were declared stable, being identified in either two environments or at two growth stages. One of the promising stable and major MTAs (Affx_123280060) detected in field conditions at reproductive stage was also detected in greenhouse conditions at seedling and reproductive stages. The stable and major (>15% PVE) MTAs can be used in chickpea breeding programmes.",
publisher = "The American Phytopathological Society (APS) Publications",
journal = "Phytopathology",
title = "Delineating Marker-trait Associations for Fusarium Wilt in Chickpea using Axiom® Cicer SNP Array",
doi = "10.1094/PHYTO-05-22-0164-FI, 1943-7684"
}
Rasool, B., Summuna, B., Đalović, I., Shah, T. A., Sheikh, P. A., Gupta, S., Tyagi, S., Bilal, S., Varshney, R. K., Abidi, I., Kumar, J., Penmetsa, V., Khanday, I., Kumar, U., Sofi, P. A., Khan, M. A., Bhat, M. A., Wani, F. J., Thudi, M.,& Mir, R. R.. (2023). Delineating Marker-trait Associations for Fusarium Wilt in Chickpea using Axiom® Cicer SNP Array. in Phytopathology
The American Phytopathological Society (APS) Publications..
https://doi.org/10.1094/PHYTO-05-22-0164-FI
Rasool B, Summuna B, Đalović I, Shah TA, Sheikh PA, Gupta S, Tyagi S, Bilal S, Varshney RK, Abidi I, Kumar J, Penmetsa V, Khanday I, Kumar U, Sofi PA, Khan MA, Bhat MA, Wani FJ, Thudi M, Mir RR. Delineating Marker-trait Associations for Fusarium Wilt in Chickpea using Axiom® Cicer SNP Array. in Phytopathology. 2023;.
doi:10.1094/PHYTO-05-22-0164-FI .
Rasool, Bushra, Summuna, Baby, Đalović, Ivica, Shah, Tariq Ahmed, Sheikh, Parveez Ahmed, Gupta, Sachin, Tyagi, Sandhya, Bilal, Sierra, Varshney, Rajeev K., Abidi, Ishfaq, Kumar, Jitendra, Penmetsa, Varma, Khanday, Imtiyaz, Kumar, Upendra, Sofi, Parvaze Ahmad, Khan, Mohd Anwar, Bhat, Mohd Ashraf, Wani, Fehim Jeelani, Thudi, Mahendar, Mir, Reyazul Rouf, "Delineating Marker-trait Associations for Fusarium Wilt in Chickpea using Axiom® Cicer SNP Array" in Phytopathology (2023),
https://doi.org/10.1094/PHYTO-05-22-0164-FI . .
2

Effect of stem structural characteristics and cell wall components related to stem lodging resistance in a newly identified mutant of hexaploid wheat (Triticum aestivum L.)

Bisht, Darshana; Kumar, Naveen; Singh, Yogita; Malik, Rashmi; Đalović, Ivica; Dhaka, Narendra Singh; Pal, Neeraj; Balyan, Priyanka; Mir, Reyazul Rouf; Singh, Vinay Kumar; Dhankher, Om Parkash; Kumar, Upendra; Kumar, Sundip

(Frontiers Media S.A., 2022)

TY  - JOUR
AU  - Bisht, Darshana
AU  - Kumar, Naveen
AU  - Singh, Yogita
AU  - Malik, Rashmi
AU  - Đalović, Ivica
AU  - Dhaka, Narendra Singh
AU  - Pal, Neeraj
AU  - Balyan, Priyanka
AU  - Mir, Reyazul Rouf
AU  - Singh, Vinay Kumar
AU  - Dhankher, Om Parkash
AU  - Kumar, Upendra
AU  - Kumar, Sundip
PY  - 2022
UR  - http://fiver.ifvcns.rs/handle/123456789/3236
AB  - In wheat, lodging is affected by anatomical and chemical characteristics of the stem cell wall. Plant characteristics determining the stem strength were measured in lodging tolerant mutant (PMW-2016-1) developed through mutation breeding utilizing hexaploid wheat cultivar, DPW-621-50. Various anatomical features, chemical composition, and mechanical strength of the culms of newly developed lodging-tolerant mutant (PMW-2016-1) and parent (DPW-621-50), were examined by light microscopy, the Klason method, prostate tester coupled with a Universal Tensile Machine, and Fourier Transform Infrared Spectroscopy. Significant changes in the anatomical features, including the outer radius of the stem, stem wall thickness, and the proportions of various tissues, and vascular bundles were noticed. Chemical analysis revealed that the lignin level in the PMW-2016-1 mutant was higher and exhibited superiority in stem strength compared to the DPW-621-50 parent line. The force (N) required to break the internodes of mutant PMW 2016-1 was higher than that of DPW-621-50. The results suggested that the outer stem radius, stem wall thickness, the proportion of sclerenchyma tissues, the number of large vascular bundles, and lignin content are important factors that affect the mechanical strength of wheat stems, which can be the key parameters for the selection of varieties having higher lodging tolerance. Preliminary studies on the newly identified mutant PMW-2016-1 suggested that this mutant may possess higher lodging tolerance because it has a higher stem strength than DPW-621-50 and can be used as a donor parent for the development of lodging-tolerant wheat varieties.
PB  - Frontiers Media S.A.
T2  - Frontiers in Plant Science
T1  - Effect of stem structural characteristics and cell wall components related to stem lodging resistance in a newly identified mutant of hexaploid wheat (Triticum aestivum L.)
SP  - 1067063
VL  - 13
DO  - 10.3389/fpls.2022.1067063
ER  - 
@article{
author = "Bisht, Darshana and Kumar, Naveen and Singh, Yogita and Malik, Rashmi and Đalović, Ivica and Dhaka, Narendra Singh and Pal, Neeraj and Balyan, Priyanka and Mir, Reyazul Rouf and Singh, Vinay Kumar and Dhankher, Om Parkash and Kumar, Upendra and Kumar, Sundip",
year = "2022",
abstract = "In wheat, lodging is affected by anatomical and chemical characteristics of the stem cell wall. Plant characteristics determining the stem strength were measured in lodging tolerant mutant (PMW-2016-1) developed through mutation breeding utilizing hexaploid wheat cultivar, DPW-621-50. Various anatomical features, chemical composition, and mechanical strength of the culms of newly developed lodging-tolerant mutant (PMW-2016-1) and parent (DPW-621-50), were examined by light microscopy, the Klason method, prostate tester coupled with a Universal Tensile Machine, and Fourier Transform Infrared Spectroscopy. Significant changes in the anatomical features, including the outer radius of the stem, stem wall thickness, and the proportions of various tissues, and vascular bundles were noticed. Chemical analysis revealed that the lignin level in the PMW-2016-1 mutant was higher and exhibited superiority in stem strength compared to the DPW-621-50 parent line. The force (N) required to break the internodes of mutant PMW 2016-1 was higher than that of DPW-621-50. The results suggested that the outer stem radius, stem wall thickness, the proportion of sclerenchyma tissues, the number of large vascular bundles, and lignin content are important factors that affect the mechanical strength of wheat stems, which can be the key parameters for the selection of varieties having higher lodging tolerance. Preliminary studies on the newly identified mutant PMW-2016-1 suggested that this mutant may possess higher lodging tolerance because it has a higher stem strength than DPW-621-50 and can be used as a donor parent for the development of lodging-tolerant wheat varieties.",
publisher = "Frontiers Media S.A.",
journal = "Frontiers in Plant Science",
title = "Effect of stem structural characteristics and cell wall components related to stem lodging resistance in a newly identified mutant of hexaploid wheat (Triticum aestivum L.)",
pages = "1067063",
volume = "13",
doi = "10.3389/fpls.2022.1067063"
}
Bisht, D., Kumar, N., Singh, Y., Malik, R., Đalović, I., Dhaka, N. S., Pal, N., Balyan, P., Mir, R. R., Singh, V. K., Dhankher, O. P., Kumar, U.,& Kumar, S.. (2022). Effect of stem structural characteristics and cell wall components related to stem lodging resistance in a newly identified mutant of hexaploid wheat (Triticum aestivum L.). in Frontiers in Plant Science
Frontiers Media S.A.., 13, 1067063.
https://doi.org/10.3389/fpls.2022.1067063
Bisht D, Kumar N, Singh Y, Malik R, Đalović I, Dhaka NS, Pal N, Balyan P, Mir RR, Singh VK, Dhankher OP, Kumar U, Kumar S. Effect of stem structural characteristics and cell wall components related to stem lodging resistance in a newly identified mutant of hexaploid wheat (Triticum aestivum L.). in Frontiers in Plant Science. 2022;13:1067063.
doi:10.3389/fpls.2022.1067063 .
Bisht, Darshana, Kumar, Naveen, Singh, Yogita, Malik, Rashmi, Đalović, Ivica, Dhaka, Narendra Singh, Pal, Neeraj, Balyan, Priyanka, Mir, Reyazul Rouf, Singh, Vinay Kumar, Dhankher, Om Parkash, Kumar, Upendra, Kumar, Sundip, "Effect of stem structural characteristics and cell wall components related to stem lodging resistance in a newly identified mutant of hexaploid wheat (Triticum aestivum L.)" in Frontiers in Plant Science, 13 (2022):1067063,
https://doi.org/10.3389/fpls.2022.1067063 . .
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Phylogenomic analysis of 20S proteasome gene family reveals stress-responsive patterns in rapeseed (Brassica napus L.)

Kumar, Vivek; Sharma, Hemant; Saini, Lalita; Tyagi, Archasvi; Jain, Pooja; Singh, Yogita; Balyan, Priyanka; Kumar, Sachin; Jan, Sofora; Mir, Reyazul Rouf; Đalović, Ivica; Singh, Krishna Pal; Kumar, Upendra; Malik, Vijai

(Frontiers Media S.A., 2022)

TY  - JOUR
AU  - Kumar, Vivek
AU  - Sharma, Hemant
AU  - Saini, Lalita
AU  - Tyagi, Archasvi
AU  - Jain, Pooja
AU  - Singh, Yogita
AU  - Balyan, Priyanka
AU  - Kumar, Sachin
AU  - Jan, Sofora
AU  - Mir, Reyazul Rouf
AU  - Đalović, Ivica
AU  - Singh, Krishna Pal
AU  - Kumar, Upendra
AU  - Malik, Vijai
PY  - 2022
UR  - http://fiver.ifvcns.rs/handle/123456789/3203
AB  - The core particle represents the catalytic portions of the 26S proteasomal complex. The genes encoding a- and b-subunits play a crucial role in protecting plants against various environmental stresses by controlling the quality of newly produced proteins. The 20S proteasome gene family has already been reported in model plants such as Arabidopsis and rice; however, they have not been studied in oilseed crops such as rapeseed (Brassica napus L.). In the present study, we identified 20S proteasome genes for a- (PA) and b-subunits (PB) in B. napus through systematically performed gene structure analysis, chromosomal location, conserved motif, phylogenetic relationship, and expression patterns. A total of 82 genes, comprising 35 BnPA and 47 BnPB of the 20S proteasome, were revealed in the B. napus genome. These genes were distributed on all 20 chromosomes of B. napus and most of these genes were duplicated on homoeologous chromosomes. The BnPA (a1-7) and BnPB (b1-7) genes were phylogenetically placed into seven clades. The pattern of expression of all the BnPA and BnPB genes was also studied using RNA-seq datasets under biotic and abiotic stress conditions. Out of 82 BnPA/PB genes, three exhibited high expression under abiotic stresses, whereas two genes were overexpressed in response to biotic stresses at both the seedling and flowering stages. Moreover, an additional eighteen genes were expressed under normal conditions. Overall, the current findings developed our understanding of the organization of the 20S proteasome genes in B. napus and provided specific BnPA/PB genes for further functional research in response to abiotic and biotic stresses.
PB  - Frontiers Media S.A.
T2  - Frontiers in Plant Science
T1  - Phylogenomic analysis of 20S proteasome gene family reveals stress-responsive patterns in rapeseed (Brassica napus L.)
SP  - 1037206
VL  - 13
DO  - 10.3389/fpls.2022.1037206
ER  - 
@article{
author = "Kumar, Vivek and Sharma, Hemant and Saini, Lalita and Tyagi, Archasvi and Jain, Pooja and Singh, Yogita and Balyan, Priyanka and Kumar, Sachin and Jan, Sofora and Mir, Reyazul Rouf and Đalović, Ivica and Singh, Krishna Pal and Kumar, Upendra and Malik, Vijai",
year = "2022",
abstract = "The core particle represents the catalytic portions of the 26S proteasomal complex. The genes encoding a- and b-subunits play a crucial role in protecting plants against various environmental stresses by controlling the quality of newly produced proteins. The 20S proteasome gene family has already been reported in model plants such as Arabidopsis and rice; however, they have not been studied in oilseed crops such as rapeseed (Brassica napus L.). In the present study, we identified 20S proteasome genes for a- (PA) and b-subunits (PB) in B. napus through systematically performed gene structure analysis, chromosomal location, conserved motif, phylogenetic relationship, and expression patterns. A total of 82 genes, comprising 35 BnPA and 47 BnPB of the 20S proteasome, were revealed in the B. napus genome. These genes were distributed on all 20 chromosomes of B. napus and most of these genes were duplicated on homoeologous chromosomes. The BnPA (a1-7) and BnPB (b1-7) genes were phylogenetically placed into seven clades. The pattern of expression of all the BnPA and BnPB genes was also studied using RNA-seq datasets under biotic and abiotic stress conditions. Out of 82 BnPA/PB genes, three exhibited high expression under abiotic stresses, whereas two genes were overexpressed in response to biotic stresses at both the seedling and flowering stages. Moreover, an additional eighteen genes were expressed under normal conditions. Overall, the current findings developed our understanding of the organization of the 20S proteasome genes in B. napus and provided specific BnPA/PB genes for further functional research in response to abiotic and biotic stresses.",
publisher = "Frontiers Media S.A.",
journal = "Frontiers in Plant Science",
title = "Phylogenomic analysis of 20S proteasome gene family reveals stress-responsive patterns in rapeseed (Brassica napus L.)",
pages = "1037206",
volume = "13",
doi = "10.3389/fpls.2022.1037206"
}
Kumar, V., Sharma, H., Saini, L., Tyagi, A., Jain, P., Singh, Y., Balyan, P., Kumar, S., Jan, S., Mir, R. R., Đalović, I., Singh, K. P., Kumar, U.,& Malik, V.. (2022). Phylogenomic analysis of 20S proteasome gene family reveals stress-responsive patterns in rapeseed (Brassica napus L.). in Frontiers in Plant Science
Frontiers Media S.A.., 13, 1037206.
https://doi.org/10.3389/fpls.2022.1037206
Kumar V, Sharma H, Saini L, Tyagi A, Jain P, Singh Y, Balyan P, Kumar S, Jan S, Mir RR, Đalović I, Singh KP, Kumar U, Malik V. Phylogenomic analysis of 20S proteasome gene family reveals stress-responsive patterns in rapeseed (Brassica napus L.). in Frontiers in Plant Science. 2022;13:1037206.
doi:10.3389/fpls.2022.1037206 .
Kumar, Vivek, Sharma, Hemant, Saini, Lalita, Tyagi, Archasvi, Jain, Pooja, Singh, Yogita, Balyan, Priyanka, Kumar, Sachin, Jan, Sofora, Mir, Reyazul Rouf, Đalović, Ivica, Singh, Krishna Pal, Kumar, Upendra, Malik, Vijai, "Phylogenomic analysis of 20S proteasome gene family reveals stress-responsive patterns in rapeseed (Brassica napus L.)" in Frontiers in Plant Science, 13 (2022):1037206,
https://doi.org/10.3389/fpls.2022.1037206 . .
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