Characterization and stress-induced expression analysis of Alfin-like transcription factors in Brassica rapa

Kayum, Md. Abdul,Park, Jong-In,Ahmed, Nasar Uddin,Jung, Hee-Jeong,Saha, Gopal,Kang, Jong-Goo,Nou, Ill-Sup Springer-Verlag 2015 Molecular genetics and genomics Vol.290 No.4

<P>The Alfin-like (AL) transcription factors (TFs) family is involved in many developmental processes, including the growth and development of roots, root hair elongation, meristem development, etc. However, stress resistance-related function and the regulatory mechanism of these TFs have yet to be elucidated. This study identified 15 Brassica rapa AL (BrAL) TFs from BRAD database, analyzed the sequences and profiled their expression first time in response to Fusarium oxysporum f. sp. conglutinans and Pectobacterium carotovorum subsp. carotovorum in fection, cold, salt and drought stresses in B. rapa. Structural and phylogenetic analyses of 15 BrAL TFs revealed four distinct groups (groups I-IV) with AL TFs of Arabidopsis thaliana. In the expression analyses, ten BrAL TFs showed responsive expression after F. oxysporum f. sp. conglutinans infection, while all BrAL TFs showed responses under cold, salt and drought stresses in B. rapa. Interestingly, ten BrAL TFs showed responses to both biotic and abiotic stress factors tested here. The differentially expressed BrAL TFs thus represent potential resources for molecular breeding of Brassica crops resistant against abiotic and biotic stresses. Our findings will also help to elucidate the complex regulatory mechanism of AL TFs in stress resistance and provide a foundation for further functional genomics studies and applications.</P>

Alfin-like transcription factor family: characterization and expression profiling against stresses in Brassica oleracea

Kayum, Md. Abdul,Park, Jong-In,Ahmed, Nasar Uddin,Saha, Gopal,Chung, Mi-Young,Kang, Jong-Goo,Nou, Ill-Sup POLISH ACADEMY SCIENCES WARSAW 2016 ACTA PHYSIOLOGIAE PLANTARUM Vol. No.

Identification and expression analysis of WRKY family genes under biotic and abiotic stresses in Brassica rapa

Kayum, Md. Abdul,Jung, Hee-Jeong,Park, Jong-In,Ahmed, Nasar Uddin,Saha, Gopal,Yang, Tae-Jin,Nou, Ill-Sup Springer-Verlag 2015 Molecular genetics and genomics Vol.290 No.1

<P>WRKY proteins constitute one of the largest transcription factor families in higher plants, and they are involved in multiple biological processes such as plant development, metabolism, and responses to biotic and abiotic stresses. Genes of this family have been well documented in response to many abiotic and biotic stresses in many plant species, but not yet against Pectobacterium carotovorum subsp. carotovorum and Fusarium oxysporum f.sp. conglutinans in any of the plants. Moreover, potentiality of a specific gene may vary depending on stress conditions and genotypes. To identify stress resistance-related potential WRKY genes of Brassica rapa, we analyzed their expressions against above-mentioned pathogens and cold, salt, and drought stresses in B. rapa. Stress resistance-related functions of all Brassica rapa WRKY (BrWRKY) genes were firstly analyzed through homology study with existing biotic and abiotic stress resistance-related WRKY genes of other plant species and found a high degree of homology. We then identified all BrWRKY genes in a Br135K microarray dataset, which was created by applying low-temperature stresses to two contrasting Chinese cabbage doubled haploid (DH) lines, Chiifu and Kenshin, and selected 41 BrWRKY genes with high and differential transcript abundance levels. These selected genes were further investigated under cold, salt, and drought stresses as well as after infection with P. carotovorum subsp. carotovorum and F. oxysporum f.sp. conglutinans in B. rapa. The selected genes showed an organ-specific expression, and 22 BrWRKY genes were differentially expressed in Chiifu compared to Kenshin under cold and drought stresses. Six BrWRKY genes were more responsive in Kenshin compared to Chiffu under salt stress. In addition, eight BrWRKY genes showed differential expression after P. carotovorum subsp. carotovorum infection and five genes after F. oxysporum f.sp. conglutinans infection in B. rapa. Thus, the differentially expressed BrWRKY genes might be potential resources for molecular breeding of Brassica crops against abiotic and biotic stresses and several genes, which showed differential expressions commonly in response to several stresses, might be useful for multiple stress resistance. These findings would also be helpful in resolving the complex regulatory mechanism of WRKY genes in stress resistance and for this further functional genomics study of these potential genes in different Brassica crops is essential.</P>

Evaluating Clinical Efficacy and Safety of A Unani Formulation in the Management of Nazla-i-Muzmin (Chronic Rhinosinusitis)

Kayum, Mohd Abdul,Qaiyyum, Ifra Abdul,Jabeen, Arzeena,Nawab, Mohammad Cellmed Orthocellular Medicine and Pharmaceutical 2021 셀메드 (CellMed) Vol.11 No.2

Nazla-i-muzmin (Chronic rhinosinusitis) is one of the commonest diseases prevalent all around the world. In India one in eight Indian suffers from this ailment. The current medical management and surgical intervention do not provide complete cure as a result there is a need to search a better alternative drug. The main objective of this study was to evaluate the safety and efficacy of a Unani formulation in the management of chronic rhinosinusitis. This study was designed as a randomised, controlled, parallel group and open label clinical study. It was carried out in 60 participants (30 participants in each group) of chronic rhinosinusitis aged between 18-65 years of either sex. The participants were enrolled based on the symptoms rhinorrhoea, sneezing, facial pain, nasal blockage, post nasal drip and thick nasal discharge. The participants of the test group was treated with a Unani formulation (9 gm) whereas Levocetrizine (10mg) was given to the participants of the control group once at night. In this study the average age of the participants was 30.36 (±10.20) years and 32.63 (±10.97) years in the control and test groups respectively with an average chronicity of 31.26 (± 43.46) months in the control group and 23.86 ± 39.4 months in the test group. The Unani formulation was found effective in reducing rhinorrhoea, sneezing, facial pain, nasal obstruction, post nasal discharge and thick nasal discharge. The snot score at post treatment comparing to the baseline was reduced to 2.1 and 2.0 in the test and control groups respectively. The Unani formulation improved the symptoms of chronic rhinosinusitis in the test group due to the possible action of the ingredients having, deobstruent, anti-inflammatory, concoctive, analgesic, expectorants and antimicrobial activities. It was concluded that the outcome of the study showed the successful management of chronic rhino-sinusitis. The formulation was well tolerated and showed no adverse effect.

Characterization and Expression Analysis of Alfin-like Transcription Factors in Response to Biotic and Abiotic Stresses in Brassica rapa

Md. Abdul Kayum,Jong-In Park,Hee-Jeong Jung,Nasar Uddin Ahmed,Yoonkang Hur,Ill-Sup Nou 한국원예학회 2014 한국원예학회 학술발표요지 Vol.2014 No.5

Aquaporin Gene Family

Md. Abdul Kayum,Jongin Park,Nasar Uddin Ahmed,Gopal Saha,Ill-Sup Nou 한국원예학회 2015 한국원예학회 학술발표요지 Vol.2015 No.5

Identification and expression analysis of Alfin-like transcription factors in response to biotic and multiple abiotic stresses in Brassica rapa

Md. Abdul Kayum,Hee-Jeong Jung,Jong-In Park,Ill-Sup Nou 한국육종학회 2014 한국육종학회 심포지엄 Vol.2014 No.07

The Alfin-like transcription factor family is one of the important gene families in eukaryotic plants. They are involved in many biological processes, such as lignocellulosic wall biosynthesis, meristem development, metabolite transport, and responses to biotic and abiotic stresses. But the regulatory mechanism of these genes involved in stresses responses is still unrevealed. In this study, we identified a total of 16 Alfin-like genes from Brassica rapa database. The 16 putative Alfin-like proteins were divided into four groups (group I-IV) based on structural and phylogenetic analyses. Accordingly, this study analyzed stress resistance-related functions of all B. rapa Alfin-like (BrAL) genes through a homology study with existing biotic and abiotic stress resistance-related Alfin-like genes of other plant species and found a high degree of similarity with them. Subsequently, these genes were further investigated by real-time quantative PCR under cold, salt and drought stresses and after infection with Fusarium oxysporum f. sp. conglutinans in B. rapa. These genes showed an organ specific expression and all genes differentially expressed in Chiifu compared to Kenshin under cold stress. Ten and seven BrALs responded highly in Kenshin compared to Chiifu under salt and drought stresses respectively. In addition, six BrAL genes showed responsive expression after Fusarium oxysporum f. sp. conglutinans infection in B. rapa. Interestingly, four BrAL genes showed responses against both biotic and abiotic stress factors. Thus, our result provides a useful reference data set as the basis for functional analysis and utilization in the resistance molecular breeding of B. rapa.

PDI Gene Family is Responsive to Stresses in Brassica rapa

Md. Abdul Kayum,Jong-In Park,Ujjal Kumar Nath,Hoy-Taek Kim,Ill-Sup Nou 한국원예학회 2016 한국원예학회 학술발표요지 Vol.2016 No.10

Research on Biotic and Abiotic Stress Related Genes Exploration and Prediction in Brassica rapa and B. oleracea: A Review

( Md. Abdul Kayum ),( Hoy Taek Kim ),( Ujjal Kumar Nath ),( Jong In Park ),( Kang Hee Kho ),( Yong Gu Cho ),( Ill Sup Nou ) 한국육종학회 2016 Plant Breeding and Biotechnology Vol.4 No.2

Global population is increasing day-by-day, simultaneously, crop production need to increase proportionately. Whereas, increase crop production being restricted due to abiotic and biotic stresses. Abiotic stresses are adversely affected crop growth and development, leading to crop loss globally and thereby causing huge amount of economic loss as well. Contrary, pathogens are attacked the plants imposing biotic stress and severely hampers the yield. Therefore, it is prime need to understand the molecular mechanism and genes involved to minimize the biotic and abiotic stresses for mitigating the Brassica vegetable crop losses. The stress responsive, pathogens related genes are involved in tolerance or resistance to stress in plants that are cross-talk with different types of stress components in signal transduction pathways. The plants have their own mechanism to overcome biotic and abiotic stresses to follow the abscisic acid (ABA)-dependent and ABA-independent pathways. Several transcription factors such as WRKY, Alfin-like, MYB, NAC, DREB, CBF are integrating to various stress signals and controlling the gene expression through networking with their related cis-elements. To develop stress tolerance and/or resistant crops plants, there is need to realize both of the plant and pathogenic disease development mechanisms. Therefore, this article is focused on (i) major and devastating stresses on vegetable crops, (ii) role of genes to overcome the stresses, and (iii) differential genes expressed under biotic and abiotic stresses in Brassica oleracea and B. rapa for getting insight of the mechanisms of development of resistance lines.

Characterization of the aquaporin family genes and stress responsive expression profiling in Brassica rapa

Md. Abdul Kayum,Jong-In Park,Nasar Uddin Ahmed,Gopal Saha,Ill-Sup Nou 한국육종학회 2015 한국육종학회 심포지엄 Vol.2015 No.07

Efficient infiltration of water through cell membranes is arbitrated by a family of transmembrane water channels called aquaporins (AQPs). Aquaporin belongs to a highly conserved group of membrane proteins called major intrinsic proteins that facilitate the transport of water and a variety of low molecular weight solutes across biological membranes,which is essential for plants to survive in stress conditions. This study identified 59 BrAQP genes from B. rapa database and Br135K microarray dataset, which was formed by applying low-temperature stresses to contrasting Chinese cabbage two inbreed lines, Chiifu and Kenshin. Based on phylogenetic analyses of BrAQPs revealed four distinct subfamilies, such as plasma membrane intrinsic proteins (PIP), tonoplast intrinsic proteins (TIP), NOD26-like intrinsic proteins (NIP), small basic intrinsic proteins (SIP) with aquaporin of Tomato and Arabidopsis thaliana. All BrAQP genes were firstly examined through homology study with existing biotic and abiotic stress resistance-related aquaporin genes of other plant species and found a high degree of homology. We selected PIP subfamily genes for expression analysis based on microarray data with high and differential transcript abundance levels and homology study with stress related aquaporin genes of other plant species. In our study, we characterized all B. rapa aquaporin genes and understanding the BrPIP subfamily gene function in plants under various environmental stimuli, the expressions of BrPIP genes under various abiotic stress conditions including cold, drought, salinity, water logging, ABA treatment and Fusarium oxysporum f. sp. Conglutinans infection were investigated by a quantitative real-time reverse transcription-PCR analysis. In our expression analysis, 4 BrPIP genes showed responsive expression against F. oxysporum f. sp. Conglutinans infection. The selected genes showed an organ-specific expression, and 12 out of 22 BrPIP genes were differentially expressed in Chiifu compared to Kenshin under cold stresses. Only 7 genes showed up regulation under drought stress and incase of salt stress 17 BrPIP genes were more responsiveness. Additionally, 18 BrPIP genes were up regulated by ABA treatment and all BrPIP genes showed down regulation under water logging stress. Together with expression and bioinformatic analyses, our results provides novel basis to allocate the stress-related biological function to each PIP gene.