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( Gopal Saha ),( Jong In Park ),( Hoytaek Kim ),( Kwon Kyoo Kang ),( Yong Gu Cho ),( Ill Sup Nou ) 한국육종학회 2016 Plant Breeding and Biotechnology Vol.4 No.1
MADS-box genes are well known for the ABC model of flower development. In this study, we investigated the expressions of A, B and C functions Brassica rapa MADS-box genes in different Ogura cytoplasmic male sterile (CMS) lines of B. juncea, B. oleracea, and their wild types. We observed two AP1-like (BjAP1 and BoCAL1), three PISTILLATA-like (PI-like; BjPI1, BoPI1, and BoPI2) and six AGAMOUS-like (AG-like; BjAGL1, BjAGL2, BjAGL3, BjAGL4, BoAGL1, and BoAGL2) genes to be altered their expressions in the CMS B. juncea and B. oleracea compared to their wild types. Partial and complete petaloidy in the third whorl (stamen) were observed of two CMS B. juncea lines J26 and J27, respectively. Besides, a sepaloidy structure was evident in the third whorl of CMS B. oleracea line 25053. Altered expressions of BjAP1 and BjPI1 in the fourth whorl (pistil) can be correlated with curved and robust stature of pistils in CMS B. juncea. Furthermore, an in silico protein interaction analysis revealed that AP-like, PI-like, and AG-like proteins are in close association with different MADS-box proteins and LEAFY (LFY), UNUSUAL FLORAL ORGANS (UFO), SEUSS (SEU), LEUNIG (LUG) for different floral organ development. We suggest that expressions of MADS-box genes might be dependent on mitochondrial signaling for cytoplasmic homeosis in CMS B. juncea and B. oleracea. The expression dataset on A, B, and C functions MADS-box genes of CMS and wild type B. juncea and B. oleracea presented in this study might be useful for the development of CMS in different Brassica species.
Gopal Saha,Jong-In Park,Hee-Jeong Jung,Nasar Uddin Ahmed,Mi-Young Chung,Watanabe Masao,Ill-Sup Nou 한국육종학회 2014 한국육종학회 심포지엄 Vol.2014 No.07
MADS-box transcription factor (TF), primarily involved in the floral organ specification with other several aspects of plant growth and development. Whole genome survey of B. rapa revealed 167 MADS-box genes and categorized into MIKCc, MIKC*, Mα, Mβ and Mγ groups based on phylogeny, protein motif structure and exon-intron organizations. MIKCc group belongs 89 genes, which is the highest in number than in any other crops till date. The MIKCc group has further classified into 13 sub-families. In case of chromosomal localization, remarkably 57 MIKCc type MADS-box genes were found in the duplicated segments of B. rapa genome, whereas only 4 M-type genes have resulted from tandem duplications. Besides floral and vegetative tissue expression we also identified MADS-box genes with their male and female gametophyte specific expression in different stages of flower bud development. Furthermore, from a low temperature treated whole genome microarray data set 19 BrMADS genes were found to show variable transcript abundance in two contrasting double haploid lines of B. rapa. Subsequently, the responsive genes were investigated under three abiotic stresses where they showed differential and corresponsive expression patterns. An extensive annotation and transcriptome profiling undertaken in this study might be useful for understanding the involvement of MADS-box genes in stress resistance besides their growth and developmental functions, which ultimately will provide the basis for functional characterization and exploitation of the candidate genes in the genetic engineering study of B. rapa
Gopal Saha,Jong-In Park,Nasar Uddin Ahmed,Md. Abdul Kayum,Ill-Sup Nou 한국육종학회 2015 한국육종학회 심포지엄 Vol.2015 No.07
The TIFY family is composed of a plant-specific group of genes with diversity of functions. This family represents four subfamily of proteins viz. ZML, TIFY, PPD and JASMONATE ZIM-domain (JAZ) proteins. TIFY proteins especially, JAZ proteins have been reported to perform different biological processes, such as developmental and stresses and hormone responses in Arabidopsis and rice. However, there is no information about this family genes in Brassicaceae. This study identifies 36 TIFY genes in Brassica rapa, an economically important crop species from this family. An extensive in silico analysis through phylogenetic grouping, protein motif organization and intron-exon distribution also confirmed 4 subfamilies of BrTIFY proteins. Out of 35 BrTIFY genes, we identified 21 under JAZ subfamily besides 7 TIFY, 6 ZML and 2 PPD. An extensive expression profiling of 21 BrTIFY JAZs both in tissues and organs of B. rapa revealed differential expression patterns. Almost all the BrTIFY JAZs predominantly expressed in leaves and flower buds. Besides, in a flower stage specific expression analysis we observed 14 BrTIFY JAZs with constitutive expression patterns. This indicates BrTIFY proteins have a strong involvement in the development of B. rapa flowers. Our protein interaction study also reveals the strong association of these proteins with the fertility and defense processes of B. rapa. To elucidate the stress responsiveness of BrTIFY genes, we analyzed the low temperature-treated whole-genome microarray data set and found almost all the BrTIFY JAZs were having variable transcript abundance in two contrasting inbred lines of B. rapa. Subsequently, all 21 BrTIFY JAZs were validated in response to cold stress in the same two lines via qPCR, where 9 genes were found to show up- regulation. And, a high and differential qPCR expression pattern of all the BrTIFY JAZs was also recorded against JA. Additionally, BrTIFY JAZs were tested against salt, drought, Fusarium, ABA and SA treatments and a considerable number of genes were found to be induced. The extensive annotation and transcriptome profiling reported in this study will be useful for understanding the involvement of TIFY genes in stress resistance and different developmental functions, which ultimately provides the basis for functional characterization and exploitation of the candidate genes for genetic engineering of B. rapa.
Performance Prediction of Vertical Submersible Centrifugal Slurry Pump
Lal Gopal Das,Prasanta Kumar Sen,Timir Kanti Saha,Chanda, Arunabha 한국유체기계학회 2010 International journal of fluid machinery and syste Vol.3 No.2
Performance prediction methodology for centrifugal submersible slurry pump has been presented in this paper. An in-depth study on various energy-head losses occurring through the pump flow in rotating reference frame has been carried out in this research work. Head-flow characteristics of the centrifugal pump have been accomplished in two stages. First performance of the centrifugal pump with clear water has been predicted by analyzing and deducting head losses from the theoretical head. Effects of solid particles size, specific gravity and concentration on pump slurry flow have been investigated. Additional head losses due to solid particles in the slurry have been predicted, analyzed and then deducted from clear water head to establish the performance of centrifugal slurry pump. The performance of centrifugal slurry pump has been predicted at with accuracy of 88 to 90 % for solid concentration of 18 % to 5 % by volume.
Arif Hasan Khan Robin,Gopal Saha,Jong-In Park,Rawnak Laila,Md Abdur Rahim,Mita Bagchi,Hoy-Taek Kim,Hee-Jeong Jung,Ill-Sup Nou 한국원예학회 2021 Horticulture, Environment, and Biotechnology Vol.62 No.6
Blackleg disease caused by Leptosphaeria maculans aff ects oilseeds and vegetables species of the Brassicaceae family. Several resistant genes have been reported in Brassica species in the A and B genomes, but the resistant locus has yet tobe mapped in the vegetable species B. oleracea . Since both A and C genome Brassica species have high ancestral synteny,it is generally believed that functional resistance against blackleg could be present in B. oleracea . Rlm1 is a major resistantgene present in chromosome A07 of Brassica napus that interacts with the AvrLm1 avirulence gene of L. maculans forhypersensitive interaction. This study identifi ed 15 orthologous Rlm1 ′ genes in the genome of B. oleracea through genomebrowsing. Then, the relative expression of Rlm1 ′ genes was investigated in two resistant lines and two susceptible cabbagelines after the inoculation of two L. maculans isolates, 03–02 s and 00–100 s, bearing avirulence gene AvrLm1 . The selectedRlm1 ′ genes have nucleotide-binding site-toll/interleukin receptor (NBS-TIR), leucine-rich repeat (LRR), coiled-coil (CC),and pathogenesis-related domains in a 7.0-mega-base pair (Mbp) genomic segment of chromosome C06 of B. oleracea . ANBS family gene bearing a TIR domain, Bol040038 , was upregulated in the resistant cabbage line ‘BN4303’ at 6, 24, and48 h after inoculation in both isolates, indicating that this genes might off er resistance against both isolates. Three genes,namely, Bol023847 , Bol040045 , and Bol040066 , showed diff erential expression in both ‘BN4303’ and ‘BN4098’ resistantcabbage lines in response to both isolates. Ten genes were upregulated in both resistant cabbage lines, and two other genes,namely, Bol039924 and Bol040069 , were upregulated only in the resistant line ‘BN4098’ after the infection of the 00–100 sisolate. These results indicated that the putative Rlm1 ′ genes off er isolate-specifi c resistance. However, the mapping andfunctional analysis are required to determine the defi nitive role of the putative Rlm1 ′ genes.
Phenotypic and Molecular Marker Based Screening of Coastal Rice Landraces under Salt Stress
Md. Faridul Islam,Nasar Uddin Ahmed,Gopal Saha 한국육종학회 2020 Plant Breeding and Biotechnology Vol.8 No.3
Traditional rice landraces of coastal areas in Bangladesh are distinct in respect to their phenotypes, responses to salt stress and yield attributes. In characterization of coastal rice landraces, 46 rice genotypes were tested for salt tolerance at their seedling and reproductive growth stages. The cluster analysis following standard evaluation score (SES), genotypes were divided into five categories (highly susceptible, susceptible, moderately tolerant, tolerant and highly tolerant) at their seedling stage. Three coastal genotypes, viz. chorbindi, joyni and kedgrangal mota, were grouped as highly saline tolerant at their seedling stage. In studying reproductive stage salinity screening, based on mean score values obtained from different morphological and yield parameters (plant height, number of effective tillers/hill, number of filled grains, panicle length, 100-grain weight, and straw dry weight), kutiakon and kajolshail were identified as the salinity tolerant landraces while tulsimala, dudhkalom, birindi, bushihara, lalmota, chorboleshor, lalchikon and bashful chikon were found as moderately tolerant to salinity. Finally, the molecular characterization using two simple sequence repeats (SSR) markers, viz., RM493 and RM3412 revealed holde mota, dingamoni, kedgrangal mota, sada mota, laxmima, dishari, lal chikon, kalijira, kalo khaya, khaioz, chorbindi, kajolshail, kutiakon, bamonkhir, dudhmora, sakhorkhora, mota dhan, and sorbimaloti as tolerant landraces. These identified salt-tolerant landraces can be used as promising germplasm resources for breeding salt-tolerant high-yielding rice varieties in the future.