Plant Gene最新文献

{"title":"Molecular network, structural and expression analyses of NHX genes in Phaseolus vulgaris in response to salt stress","authors":"Faten Mhadhbi,&nbsp;Hatem Boubakri","doi":"10.1016/j.plgene.2025.100526","DOIUrl":"10.1016/j.plgene.2025.100526","url":null,"abstract":"<div><div>Salt stress is one of the most serious abiotic stresses limiting plant productivity worldwide. Here, we identified and characterized Sodium/Hydrogen antiporter (NHX) family in <em>Phaseolus vulgaris</em> genome and studied their expression in response to salt stress, for the first time, using RT q-PCR. In total, we identified 9 <em>PvNHX</em> genes from the common bean genome. Phylogeny, gene structure, motif patterns were performed and allowed the classification of these genes according to their subcellular localization into three subfamilies termed vacuolar (Vac-class), plasma membrane (PM-class) and endosomal (Endo-class). Conserved motifs and gene structures showed that most of which had an amiloride-binding site (FFI/LY/FLLPPI). RT q-PCR analysis revealed that salt stress induced the expression of specific <em>PvNHX</em> genes in both leaves (<em>PvNHX1</em>, <em>PvNHX2</em>, Pv<em>NHX3</em>, and <em>PvNHX7</em>) and roots (<em>PvNHX1</em>, <em>PvNHX2</em>, <em>PvNHX3</em>, <em>PvNHX4</em> and <em>PvNHX7</em>), suggesting their potential role in regulating salinity tolerance in <em>P. vulgaris.</em> Protein-protein interaction (PPI) network indicated that several PvNHX proteins interact with CIPK24 (CBL-interacting serine/threonine-protein kinase 24), CBL4 (Calcineurin B-like protein 4) and KEA4 (K⁺ efflux antiporter 4) proteins, implying their involvement in CBL-CIPK pathway during salinity adaptation. These findings provide valuable targets within the <em>PvNHX</em> family for genetic engineering aimed at improving salinity tolerance in <em>Phaseolus vulgaris</em>.</div></div>","PeriodicalId":38041,"journal":{"name":"Plant Gene","volume":"43 ","pages":"Article 100526"},"PeriodicalIF":2.2,"publicationDate":"2025-06-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144321044","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"The 14-3-3 gene family in Nicotiana tabacum: Genome-wide identification, expression profiling, subcellular localization, and protein interaction analysis in response to cadmium stress","authors":"Tengfei Ma ,&nbsp;Kunjian Yang ,&nbsp;Fang Yang ,&nbsp;Li Chen ,&nbsp;Ji Chen ,&nbsp;Shunqin Zhu ,&nbsp;Wanhong Liu","doi":"10.1016/j.plgene.2025.100525","DOIUrl":"10.1016/j.plgene.2025.100525","url":null,"abstract":"<div><div>Plant 14-3-3 proteins play a crucial role in the fine-tuning of growth and development, stress resistance, and nutrient metabolism. Tobacco is recognized as a hyperaccumulator of cadmium (Cd), yet the understanding of the <em>Nt14-3-3</em> gene family remains limited in tobacco (<em>Nicotiana tabacum</em> L.). This study systematically identified 28 members (designated as NtGRF1 through NtGRF28) of the <em>Nt14-3-3</em> family in the cultivated variety TN90 and categorized them into ε and non-ε groups. Genes within the same evolutionary branch exhibited similar conserved motif patterns and intron-exon structures. Promoter <em>cis</em>-acting element analysis indicated that the expression of <em>NtGRF</em> genes is regulated by plant hormones, particularly abscisic acid (ABA) and jasmonic acid (JA), as well as various stress factors. RNA-seq-based analysis revealed three expression patterns for the <em>Nt14-3-3</em> family genes: constitutively high-expressing, low-expressing, and tissue-specific expression groups, corroborating these findings with qPCR results. Cd stress significantly enhanced the expression levels of six out of eight randomly screened <em>NtGRF</em> genes (<em>NtGRF8, NtGRF15, NtGRF16, NtGRF21, NtGRF22,</em> and <em>NtGRF28</em>). Subcellular localization analysis showed that <em>NtGRF8, NtGRF16,</em> and <em>NtGRF22</em> were expressed in the cytoplasm and nucleus, while <em>NtGRF26</em> was restricted to the cytoplasm. Yeast two-hybrid assays demonstrated that <em>NtGRF16</em> and <em>NtGRF22</em> formed homodimers, with heterodimer formation also prevalent. These results offer important insights into the potential biological functions of the <em>Nt14-3-3</em> gene family, emphasizing their role in various biological processes, particularly in the response of tobacco to cadmium stress.</div></div>","PeriodicalId":38041,"journal":{"name":"Plant Gene","volume":"43 ","pages":"Article 100525"},"PeriodicalIF":2.2,"publicationDate":"2025-06-11","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144279366","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Azomite, a volcanic ash-based fertilizer modulates gene expression during photomorphogenesis through phyB-dependent and independent pathways","authors":"Elijah Mehlferber ,&nbsp;Kent F. McCue ,&nbsp;Yang Bi ,&nbsp;Robert Reed ,&nbsp;Jon Ferrel ,&nbsp;Rajnish Khanna","doi":"10.1016/j.plgene.2025.100523","DOIUrl":"10.1016/j.plgene.2025.100523","url":null,"abstract":"<div><div>Azomite is a lightly weathered dacitic (rhyolitic) tuff breccia (DTB), it is silicon-based with over 70 minerals and trace elements (micronutrients). In previous studies, application of Azomite increased greenhouse tomato production. In the tomato root endosome, Azomite caused functional shifts from higher abundance of microbes involved in metabolism of 2- to 4- carbon compounds to higher levels of microbes involved in carbohydrate metabolism. This suggested a possible increase in carbohydrate production and shift in exudates involved in microbial recruitment. Parallel studies with 4-day old Arabidopsis seedlings revealed that photosynthetically active radiation was required for Azomite-induced increase in both hypocotyl length and cotyledon area. These data suggested that Azomite may influence growth through changes in photosynthesis, leading to carbohydrate-enriched root exudates and increased growth. Here, we present RNAseq analysis in response to Azomite of 4-day old Arabidopsis seedlings grown either in continuous darkness (Dc) or under continuous red-light (Rc). Significant changes in genes involved in carbon assimilation and nutrient uptake, amongst other functional pathway categories are reported. Comparison with <em>phyB</em> (phytochrome B, red-light photoreceptor) mutant seedlings is shown to determine the overlap between phyB-regulated genes and Azomite-responsive genes. Two concentrations, 0.5 g and 1.0 g of Azomite were included because our previous results with tomato and Arabidopsis exhibited a dose-dependent response. Several genes are identified as responding differentially, including <em>SUBERMAN</em>, a myb-family transcription factor that regulates suberization of the root endodermis. This study advances our understanding of how complex mixtures of micronutrients such as Azomite influence gene expression during plant growth and development.</div></div>","PeriodicalId":38041,"journal":{"name":"Plant Gene","volume":"43 ","pages":"Article 100523"},"PeriodicalIF":2.2,"publicationDate":"2025-06-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144314498","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Reference gene selection and expression analyses of anthocyanin biosynthetic genes in flower and vegetative tissues of Clivia miniata L.","authors":"Mathabatha F. Maleka ,&nbsp;Johan J. Spies","doi":"10.1016/j.plgene.2025.100521","DOIUrl":"10.1016/j.plgene.2025.100521","url":null,"abstract":"<div><div>Pigmentation is one of the most variable traits in plants, with flowers typically being the main tissue that displays such diversity. Unlike other horticulturally valuable plants, the genetic basis of flower pigmentation in <em>Clivia</em> species remains poorly understood. Therefore, this study aimed to analyze the expression of numerous anthocyanin biosynthetic genes in flower and vegetative tissues of the most popular <em>Clivia</em> species, <em>Clivia miniata</em>. Such information can facilitate the breeding and biotechnological use of <em>Clivia</em> in the global horticulture value-chain. Initially, we mined a previously assembled <em>C. miniata</em> flower transcriptome for <em>WDR</em> transcripts that are homologous to key pigmentation genes from maize (<em>PAC1</em>) and <em>Arabidopsis thaliana</em> (<em>TTG1</em>). Subsequently, we identified and tested eight candidate reference genes (<em>18S</em>, <em>ACT</em>, <em>EF1</em>α, <em>G6PDH</em>, <em>PP2A</em>, <em>RNPII</em>, <em>TUB</em>α and <em>UBQ</em>) for expression stability in <em>Clivia</em> tissues using geNorm, NormFinder, BestKeeper, and the comparative Delta-Ct method. Homology analysis revealed a transcript encoding a partial protein with specific motifs that are common in pigmentation-related WDR proteins. Further, three reference genes (<em>CmiPP2A</em>, <em>CmiEF1</em>α and <em>Cmi18S</em>) were most stable in tested <em>Clivia</em> tissues. Quantitative real-time PCR (qPCR) analyses of ten anthocyanin biosynthetic genes (<em>CmiDFR</em>, <em>CmiF3H</em>, <em>CmiF3’H</em>, <em>CmiUF3GT</em>, <em>CmibHLH001</em>, <em>CmibHLH002</em>, <em>CmiMYB001</em>, <em>CmiMYB002</em>, <em>CmiMYB003</em> and <em>CmiWDR001</em>) normalized against the three reference genes revealed that most had relatively higher expression levels in flower than vegetative tissues. Also, expression was generally higher during anthesis than in buds, but some genes remarkably showed marked expression in roots too. Overall, this is the first study to systematically select and validate reference genes for expression analysis of anthocyanin biosynthetic genes in <em>Clivia</em>.</div></div>","PeriodicalId":38041,"journal":{"name":"Plant Gene","volume":"43 ","pages":"Article 100521"},"PeriodicalIF":2.2,"publicationDate":"2025-05-30","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144263937","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Genome-wide identification of aldehyde dhydrogenase (ALDH) family genes in pepper (Capsicum annuum) reveals involvement of CaALDH7B1 in heat and drought stress tolerance","authors":"Bo Yang ,&nbsp;Yifen Shang ,&nbsp;Lang Wen ,&nbsp;Yijia Cui ,&nbsp;Zixing Li ,&nbsp;Yuan Cheng ,&nbsp;Chaochao Liu","doi":"10.1016/j.plgene.2025.100524","DOIUrl":"10.1016/j.plgene.2025.100524","url":null,"abstract":"<div><div>Abiotic stresses such as heat and drought lead to oxidative damage in plants by inducing excessive accumulation of reactive oxygen species (ROS). Aldehyde dehydrogenases (ALDHs), which detoxify reactive aldehydes, play critical roles in stress responses, but their functions in pepper (<em>Capsicum annuum</em>) remain largely unexplored. In this study, 28 CaALDH genes were identified and categorized into nine families. Phylogenetic and synteny analyses revealed strong evolutionary conservation, highlighting CaALDH2B4 and CaALDH7B1 as key members. Expression profiling showed distinct tissue-specific patterns and robust induction under heat and drought stress. Functional analysis via virus-induced gene silencing (VIGS) confirmed that CaALDH7B1 enhances stress tolerance by limiting ROS accumulation, promoting antioxidant enzyme activity (SOD, CAT, APX, POD), and maintaining NADPH/NADP⁺ homeostasis. Comparative genomics and structural modeling further revealed that CaALDH7B1 is evolutionarily conserved, with critical NADP⁺-binding residues retained across plant species. These findings underscore the pivotal role of CaALDH7B1 in oxidative stress regulation and provide new insights into the functional evolution of the ALDH gene family in pepper.</div></div>","PeriodicalId":38041,"journal":{"name":"Plant Gene","volume":"43 ","pages":"Article 100524"},"PeriodicalIF":2.2,"publicationDate":"2025-05-30","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144194646","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"The calmodulin-binding transcriptional activator transcription factor family in foxtail millet (Setaria italica L.): Molecular characterization, codon bias, and evolutionary trajectory","authors":"Huilong Chen ,&nbsp;Kexin Ji ,&nbsp;Yun Bai ,&nbsp;Yuxian Li ,&nbsp;Ying Liu ,&nbsp;Fang Liu ,&nbsp;Yutong Cui ,&nbsp;Weina Ge ,&nbsp;Zhenyi Wang","doi":"10.1016/j.plgene.2025.100522","DOIUrl":"10.1016/j.plgene.2025.100522","url":null,"abstract":"<div><div>Calmodulin-binding transcriptional activator (CAMTA) is a calmodulin-binding transcription factor, which plays an important role in calcium/calmodulin transduction signaling pathway. Foxtail millet (<em>Setaria italica</em> L.) is an economically important C4 model crop, but the genome-wide identification and molecular evolution of the CAMTA family is not yet available. In this study, seven CAMTA genes were identified from the foxtail millet genome via bioinformatics methods. They were overall similar in structure but differed, and all showed tissue expression specificity. Regarding molecular evolution, codon bias contributed to the evolution of the CAMTA family, and interestingly, base mutation was not the main factor affecting their codon bias, and may also be affected by factors such as natural selection and other factors. Multiple traces indicated that polyploidization events primarily led to the expansion of the plant CAMTA family, with overall similar but differentiated expansion histories in different species, and that <em>Selaginella moellendorfii</em> possesses the most paralogous genes being the most distinctive. More intriguingly, we found the opposite quantitative evolutionary history of terrestrial plants to that of the algal CAMTA family. Therefore, we firstly analyzed the molecular properties of the CAMTA transcription factor family in foxtail millet and explored its molecular evolutionary trajectory, and constructed a flow of evolutionary trajectories from monospecies transition to the plant kingdom for reference.</div></div>","PeriodicalId":38041,"journal":{"name":"Plant Gene","volume":"43 ","pages":"Article 100522"},"PeriodicalIF":2.2,"publicationDate":"2025-05-29","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144194647","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Identification of medicinal plant Solanum procumbens Lour. using DNA barcodes and morphology","authors":"Lieu Thi Thuy Nguyen ,&nbsp;Quyen Thi Thao Tran ,&nbsp;Dan Thai Vo ,&nbsp;Tri Minh Bui ,&nbsp;Biet Van Huynh ,&nbsp;Dung Minh Ha-Tran","doi":"10.1016/j.plgene.2025.100517","DOIUrl":"10.1016/j.plgene.2025.100517","url":null,"abstract":"<div><h3>Background</h3><div>This study employed DNA barcoding to identify and differentiate <em>Solanum procumbens</em>, a potential medicinal plant used from other species in Solanaceae family. Eleven plant samples of <em>Solanum</em> spp. with morphological characteristics similar with those of <em>S. procumbens</em> and <em>S. trilobatum</em> were collected from various locations across Vietnam. Five DNA barcode markers were analyzed for identifying <em>Solanum procumbens</em> and its morphologically cryptic species <em>Solanum trilobatum</em>.</div></div><div><h3>Results</h3><div>Ten putative <em>S. procumbens</em> samples displayed a high identity (99.6–99.7 %) with the reference sequence within the transfer RNA leucine-transfer RNA phenylalanine <em>(trnL</em>–<em>trnF)</em> region. DNA sequences of the Internal Transcribed Spacer (ITS) region exhibited lower identity with the reference sequence, ranging from 94 % to 97.25 %. Despite this difference, DNA barcoding effectively differentiated these individuals, with both chloroplast <em>trnL</em>–<em>trnF</em> and nuclear ITS barcodes achieving high identification accuracy. The precision of <em>trnL</em>–<em>trnF</em> and ITS in species identification was validated using dried leaf samples of the putative <em>S. procumbens</em> and <em>S. trilobatum</em>. The consistency between fresh and dried samples confirms that our results are reliable and applicable in the pharmaceutical industry.</div></div><div><h3>Conclusions</h3><div>Phylogenetic analysis based on barcoding data aligned with morphology-based phenogram. These findings demonstrate the effectiveness of DNA barcoding for accurate identification of <em>S. procumbens</em>, particularly when morphological traits are ambiguous.</div></div>","PeriodicalId":38041,"journal":{"name":"Plant Gene","volume":"43 ","pages":"Article 100517"},"PeriodicalIF":2.2,"publicationDate":"2025-05-26","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144166991","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Genome-wide analysis of receptor-like 2 kinase 1-like genes reveals involvement of a RLK1L member in tolerance to salt stress in Medicago sativa","authors":"Yiping Wei ,&nbsp;Tian Zhang ,&nbsp;Qinyan Bao,&nbsp;Zhaozhu Wen,&nbsp;Shuzhi Ma,&nbsp;Yanbo Zhang,&nbsp;Wenxuan Du","doi":"10.1016/j.plgene.2025.100520","DOIUrl":"10.1016/j.plgene.2025.100520","url":null,"abstract":"<div><div>The <em>Catharanthus roseus</em> receptor-like kinase 1-like (CrRLK1L) family constitutes a specialized group within plant receptor-like protein kinases that has been detected in numerous plant varieties. However, <em>RLK1L</em> members have not been characterized in alfalfa. Through systematic analysis, this study examined the features and identification of <em>RLK1L</em> genes within alfalfa based on known gene sequences from the model plants within the Arabidopsis genus, specifically <em>Arabidopsis thaliana</em>, and those in the Medicago genus, such as <em>Medicago truncatula</em>. Phylogenetic analysis of <em>AtCrRLK1Ls</em>, <em>MtCrRLK1Ls</em>, and <em>MsCrRLK1Ls</em> led to the classification of 19 <em>MsCrRLK1L</em> genes in alfalfa into eight distinct clusters<em>.</em> Bioinformatic analyses revealed that the molecular masses of MsCrRLK1L proteins spanned from 29.17 to 167.36 kDa. Subcellular targeting predictions indicated predominant cell membrane localization for these polypeptides Conserved domain profiling demonstrated the ubiquitous presence of a malectin-like domain across all MsCrRLK1L members. Chromosome localization and collinearity analysis showed that the 19 <em>MsCrRLK1L</em> genes were unevenly distributed across five alfalfa chromosomes, with four gene pairs exhibiting intra-species collinearity. <em>Cis</em>-Acting element analysis identified stress- and hormone-responsive motifs, suggesting that <em>MsCrRLK1Ls</em> are involved in abiotic stress signaling. Gene expression profiling under salt stress (200 mM NaCl) demonstrated tissue-specific induction patterns, with six <em>MsCrRLK1L</em> genes significantly upregulated in aerial and root tissues. Furthermore, <em>MsCrRLK1L2</em> overexpression in <em>Arabidopsis</em> improved the germination rate and growth status under salt stress. This study comprehensively profiles the <em>MsCrRLK1L</em> family in alfalfa, confirming its role in salt tolerance and suggesting genetic targets to boost crop resilience.</div></div>","PeriodicalId":38041,"journal":{"name":"Plant Gene","volume":"43 ","pages":"Article 100520"},"PeriodicalIF":2.2,"publicationDate":"2025-05-23","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144139563","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Genetic diversity analysis in cytoplasmic male sterile ‘A’ lines and restorer ‘R’ lines of Indian mustard using SSR markers","authors":"K.H. Singh,&nbsp;Lal Singh,&nbsp;Nehanjali Parmar,&nbsp;Deepika Sharma,&nbsp;J. Nanjundan,&nbsp;Ajay Kumar Thakur","doi":"10.1016/j.plgene.2025.100518","DOIUrl":"10.1016/j.plgene.2025.100518","url":null,"abstract":"<div><div>Indian mustard (<em>Brassica juncea</em> L. Czern &amp; Coss.) is a highly economically important oilseed crop of India. An accurate estimation of genetic diversity inherent in breeding material is a pre-requisite for the success of any hybrid breeding programme, as it leads to identification of genetically divergent parents for exploiting high heterotic levels. In the present study, 200 genome-wide spanned simple sequence repeat (SSR) markers were used for estimation of genetic diversity and identification of genetically divergent parental combinations in a panel of 28 parental lines of Indian mustard comprising of 21 cytoplasmic male sterile (CMS) ‘A' lines and 7 restrorer ‘R' lines. A total of 179 SSR markers resulted in positive amplification with 155 (81.57 %) SSRs producing polymorphic amplicons and 24 (13.41 %) SSRs resulted into monomorphic products. Allele number varied from 2 to 6 with a mean value of 3.27 alleles per SSR marker. PIC values ranged from 0.23 to 0.7 with a mean value of 0.38 per SSR marker. Gene diversity values were in the range of 0.27–0.75 with average value of 0.47, inferring the presence of a moderate level of genetic diversity in the plant material. Neighbor-Joining dendrogram could not exactly differentiate ‘A' and ‘R' lines into different groups. This study led to identification of few genetically diverse A and R lines, suitable for making crosses for heterotic hybrid development in Indian mustard. On the basis of Euclidean distances, various cross-combinations viz. MJA10 &amp; MJR3/EC597313, MJA 14 &amp; MJR3/EC597313, and MH 12–12/EC597313S &amp; MJR9 were designated as genetically diverse genotypes. These cross-combinations may be used in hybrid breeding program to exploit heterosis in Indian mustard improvement.</div></div>","PeriodicalId":38041,"journal":{"name":"Plant Gene","volume":"43 ","pages":"Article 100518"},"PeriodicalIF":2.2,"publicationDate":"2025-05-11","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144068341","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Genome-wide identification of LOX gene in four cotton species and revealed its function in callus induction and drought tolerance","authors":"Sani Muhammad Tajo ,&nbsp;Zhaoe Pan ,&nbsp;K.M. Yusuf ,&nbsp;Salisu Bello Sadau ,&nbsp;Guowei Lv ,&nbsp;Shoupu He ,&nbsp;Xiaoli Geng ,&nbsp;Xiongming Du","doi":"10.1016/j.plgene.2025.100516","DOIUrl":"10.1016/j.plgene.2025.100516","url":null,"abstract":"<div><div>Cotton is one of the important fiber crops. Drought is the primary abiotic factor that restricts cotton growth and development and lowers its output. Plant <em>LOX</em> (lipoxygenases) genes catalyze the oxidation of polyunsaturated fatty acids into a variety of functional oxylipins. The LOX gene family has been thoroughly investigated under biotic and abiotic stressors; however, knowledge of their functions on callus induction and regeneration in cotton is still scarce. This study identified 34, 38, 23, and 20 LOX genes in the <em>Gossypium hirsutum</em>, <em>Gossypium barbadense</em>, <em>Gossypium arboreum</em>, and <em>Gossypium raimondii</em>, respectively. The <em>LOX</em> genes were found to be divided into three main categories, 9-LOX, 13-LOX Type I, and 13-LOX Type II. Three accessions of <em>G. hirsutum</em> were used to generate callus from hypocotyl, cotyledon, and shoot tip and we observed that the highest expression of the <em>GhLOX</em> genes were in the hypocotyl callus and most of <em>LOX</em> gene expression was up-regulated in one week callus and decreased in two week and four week callus except in the shoot tip induced callus in Jinmian 498. Virus-induced gene silencing of <em>GhLOX5</em> (Gh_A02G037000) revealed that the growth of the silenced plant was significantly decreased compared to WT. Excised leaf water loss and relative electrolyte leakage levels were increased about 23 % and 12 % in the <em>GhLOX5</em> silenced plant when compared to the WT. Compared to the WT, the silenced plant had significantly higher antioxidant activity (25 % in MDA content and 45 % in H₂O₂ content). The importance of <em>LOX</em> genes in drought stress and callus induction is clear, but further research is needed to understand their molecular mechanism.</div></div>","PeriodicalId":38041,"journal":{"name":"Plant Gene","volume":"43 ","pages":"Article 100516"},"PeriodicalIF":2.2,"publicationDate":"2025-04-30","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143908207","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}