Article
Biochemistry & Molecular Biology
Maria Gretsova, Svetlana Surkova, Alexander Kanapin, Anastasia Samsonova, Maria Logacheva, Andrey Shcherbakov, Anton Logachev, Mikhail Bankin, Sergey Nuzhdin, Maria Samsonova
Summary: This study investigates the control of flowering time in chickpea (Cicer arietinum) through transcriptome analysis. The researchers identify and analyze differentially expressed genes in different chickpea cultivars and wild species, showing that the differences in gene expression are vernalization-dependent. They also highlight the role of the FTa3 gene in the vernalization response of cultivated chickpea. This research contributes to our understanding of flowering time control in chickpea and provides potential genetic strategies for improvement of this important agronomic trait.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Biochemistry & Molecular Biology
Himabindu Kudapa, Rutwik Barmukh, Vanika Garg, Annapurna Chitikineni, Srinivasan Samineni, Gaurav Agarwal, Rajeev K. K. Varshney
Summary: In this study, the transcriptome dynamics of six contrasting heat stress responsive chickpea genotypes were investigated using an RNA-seq approach. A total of 14,544 differentially expressed genes were identified, mainly involved in metabolic processes, cell wall remodeling, calcium signaling, and photosynthesis. Pathway analysis revealed the enrichment of metabolic pathways, biosynthesis of secondary metabolites, and plant hormone signal transduction under heat stress conditions. Candidate genes underlying heat tolerance component traits were also identified. This study provides important insights into the molecular mechanisms of heat stress response in chickpea and facilitates the development of climate-resilient chickpea varieties.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Multidisciplinary Sciences
Rutwik Barmukh, Khela Ram Soren, Praveen Madugula, Priyanka Gangwar, P. S. Shanmugavadivel, Chellapilla Bharadwaj, Aravind K. Konda, Sushil K. Chaturvedi, Aditi Bhandari, Kritika Rajain, Narendra Pratap Singh, Manish Roorkiwal, Rajeev K. Varshney
Summary: By using a high-density genetic map and phenotypic data, 10 major-effect QTLs and 6 minor-effect QTLs affecting yield, yield components, and agronomic traits were identified. The major-effect QTLs for 100-seed weight and plant height contained important genes such as C3HC4 RING finger protein, pentatricopeptide repeat (PPR) protein, sugar transporter, leucine zipper protein, and NADH dehydrogenase.
Article
Plant Sciences
Vanika Garg, Annapurna Chitikineni, Mamta Sharma, Raju Ghosh, Srinivasan Samineni, Rajeev K. Varshney, Himabindu Kudapa
Summary: Comparative transcriptome analysis was conducted to investigate the molecular mechanism of Fusarium wilt (FW) resistance in chickpea. Differentially expressed genes (DEGs) were identified between resistant and susceptible genotypes under control and stress conditions. A considerable number of transcription factor encoding genes showed differential expression patterns, and several previously reported FW resistance-related genes were co-localized with the identified DEGs.
Article
Green & Sustainable Science & Technology
Noman Mehboob, Mubshar Hussain, Waqas Ahmed Minhas, Tauqeer Ahmad Yasir, Muhammad Naveed, Shahid Farooq, Saleh Alfarraj, Ali Tan Kee Zuan
Summary: The study showed that soil application of boron and co-application with boron-tolerant bacteria had positive effects on the growth, yield, and grain boron concentration of chickpea, especially with the lowest boron level of 0.25 mg B kg(-1) soil.
Article
Plant Sciences
Vajinder Pal, Guriqbal Singh, Salwinder Singh Dhaliwal
Summary: Tank mix foliar application of ZnSO4 (0.5%) + FeSO4 (0.5%) + urea (2%) during flowering and pod formation stages of chickpea significantly improved zinc and iron content in the grains, leading to higher yield and protein content compared to sole application and control groups. This method shows potential for biofortification to address malnutrition in humans.
JOURNAL OF SOIL SCIENCE AND PLANT NUTRITION
(2021)
Article
Genetics & Heredity
Rajanikanth Govindarajulu, Ashley N. Hostetler, Yuguo Xiao, Srinivasa R. Chaluvadi, Margarita Mauro-Herrera, Muriel L. Siddoway, Clinton Whipple, Jeffrey L. Bennetzen, Katrien M. Devos, Andrew N. Doust, Jennifer S. Hawkins
Summary: This study performed QTL mapping of multiple agronomic traits in a recombinant inbred line (RIL) population, identifying both environment-penetrant and environment-specific QTL. By integrating transcriptomics, key regulatory genes associated with tiller elongation in sorghum were discovered.
G3-GENES GENOMES GENETICS
(2021)
Article
Respiratory System
Martina Bonatti, Vanessa Pitozzi, Paola Caruso, Silvia Pontis, Maria Gloria Pittelli, Caterina Frati, Chiara Mangiaracina, Costanza Anna Maria Lagrasta, Federico Quaini, Simona Cantarella, Simone Ottonello, Gino Villetti, Maurizio Civelli, Barbara Montanini, Marcello Trevisani
Summary: This study investigated the development of lung fibrosis in a BLM rat model and evaluated its translational value in relation to human IPF through histomorphometric and transcriptomic analyses. The findings showed similarities in gene expression regulation, particularly with ECM-related genes, between the BLM model and human IPF.
BMJ OPEN RESPIRATORY RESEARCH
(2023)
Article
Agronomy
Boutheina Douh, Amel Mguidiche, Massoud Jar Allah Al-Marri, Mohamed Moussa, Hichem Rjeb
Summary: The study evaluated six kabuli chickpea genotypes under different water levels, finding no significant effects on height, biological yield, and branching number, but varied performances in water use efficiency. Principal Component Analysis revealed two main axes representing different correlations.
ITALIAN JOURNAL OF AGROMETEOROLOGY-RIVISTA ITALIANA DI AGROMETEOROLOGIA
(2021)
Review
Biotechnology & Applied Microbiology
Udita Basu, Swarup K. Parida
Summary: Plants have adapted to different environments by regulating developmental factors, resulting in variations in traits that contributed to their survival. Key developmental pathways, such as CLAVATA-WUSCHEL, GID1-DELLA, LAZY1-TAC1, and TFL1-FT, play significant roles in plant architecture. Allelic variants of these regulators shaped crops during domestication. With genome-editing techniques, it is possible to manipulate these developmental pathways to customize crops for specific environments and increase yield stability.
PLANT BIOTECHNOLOGY JOURNAL
(2023)
Article
Biochemical Research Methods
Udita Basu, Akash Sharma, Deepak Bajaj, Naveen Malik, Uday Chand Jha, Hari D. Upadhyaya, Swarup K. Parida
Summary: DRRR genes play crucial roles in protecting cells from mutations and regulating important agronomic traits in plants. Studying DRRR genes in legumes like chickpea can help identify potential genes involved in traits such as flowering and drought tolerance.
PLANT MOLECULAR BIOLOGY REPORTER
(2022)
Article
Plant Sciences
Poonam Devi, Uday Chand Jha, Vijay Prakash, Sanjeev Kumar, Swarup Kumar Parida, Pronob J. Paul, P. V. Vara Prasad, Kamal Dev Sharma, Kadambot H. M. Siddique, Harsh Nayyar
Summary: High-temperature stress is a major threat to crop yields and identifying heat-tolerant crop genotypes is important. This study identified several promising chickpea genotypes with increased tolerance to heat stress, which could be used for breeding heat-resilient chickpea cultivars.
FRONTIERS IN PLANT SCIENCE
(2022)
Review
Genetics & Heredity
Uday Chand Jha, Harsh Nayyar, Swarup K. Parida, Melike Bakir, Eric J. B. von Wettberg, Kadambot H. M. Siddique
Summary: Legume crops are crucial for global food security, but genomic research on minor/underutilized legumes is limited. However, recent progress offers hope for improving genetic gains and developing climate-resilient cultivars. This review discusses advancements in genomic resource development, functional genes, and novel breeding technologies, highlighting the potential of genomic resources in underutilized legumes to contribute to achieving the zero hunger sustainable development goal by 2030.
FRONTIERS IN GENETICS
(2022)
Article
Plant Sciences
Poonam Mehra, Bipin K. Pandey, Lokesh Verma, Ankita Prusty, Ajit Pal Singh, Shivam Sharma, Naveen Malik, Malcolm J. Bennett, Swarup K. Parida, Jitender Giri, Akhilesh K. Tyagi
Summary: Seed size is an important determinant of seed weight and crop yield, and the jasmonic acid (JA) signaling repressor OsJAZ11 plays a key role in controlling rice seed width and weight. Overexpressing OsJAZ11 in transgenic rice lines resulted in wider and heavier seeds, as well as altered spikelet morphogenesis and expression of JA-related genes, OsGW7, and MADS genes.
Review
Biochemistry & Molecular Biology
Uday C. Jha, Harsh Nayyar, Swarup K. Parida, Rupesh Deshmukh, Eric J. B. von Wettberg, Kadambot H. M. Siddique
Summary: Grain legumes, as a rich source of dietary protein, play a crucial role in securing global food security. Enhancing the protein content of grain legumes can alleviate the problem of malnutrition and hidden hunger. Genetic variability and molecular marker technology have been used to improve the protein content of high-yielding, low-protein genotypes. Functional genomics, proteomics, and metabolomics have shed light on the accumulation of proteins and metabolites in high-protein legume genotypes. In addition, genomic selection, high-throughput phenotyping, genome editing tools, and speed breeding protocols have great potential in enhancing the protein content of grain legumes and reducing global hunger risk.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Biochemistry & Molecular Biology
Jitendra Kumar Mohanty, Uday Chand Jha, G. P. Dixit, Swarup K. Parida
Summary: Chickpea, also known as Bengal gram or Garbanzo bean, is facing productivity crisis worldwide due to various stresses. The genetic diversity of cultivated chickpea is limited, hindering the development of stress-resilient cultivars. However, the wild relatives of chickpea offer hope for improving the cultivated gene pool. This review summarizes efforts to understand the origins and evolution of chickpea's gene pool, as well as the limitations in utilizing wild relatives for crop improvement. The review highlights the importance of genomics in uncovering trait-specific diversity and domestication patterns of chickpea, and the potential for using this knowledge to enhance crop improvement.
MOLECULAR BIOLOGY REPORTS
(2022)
Article
Plant Sciences
Uday Chand Jha, Harsh Nayyar, Swarup K. Parida, R. Beena, Jiayin Pang, Kadambot H. M. Siddique
Summary: Phosphorus (P) is a crucial nutrient for plant growth, but its sources are non-renewable, raising concerns for sustainable agriculture and food security. Improving plant P-use efficiency (PUE) is necessary for intensive cropping systems, and this review explores various breeding approaches and tools to enhance PUE in grain legumes. The genetic architecture of PUE traits is complex, influenced by both genetics and the environment. Advances in genomics and functional genomics have provided insights into the underlying genetic mechanisms and pathways related to PUE, while novel breeding schemes and tools offer opportunities for designing P-use-efficient cultivars in low-P environments.
ENVIRONMENTAL AND EXPERIMENTAL BOTANY
(2023)
Article
Plant Sciences
Anurag Daware, Ankit Malik, Rishi Srivastava, Durdam Das, Ranjith K. K. Ellur, Ashok K. K. Singh, Akhilesh K. K. Tyagi, Swarup K. K. Parida
Summary: The advent of the pangenome era has uncovered previously unknown genetic variation in diverse crop plants, but conventional single-reference genotyping methods often fail to capture a large portion of this variation, leading to reference bias. To overcome this, a Rice Pangenome Genotyping Array (RPGA) was developed, enabling rapid genotyping based on the entire 3K rice pangenome. This array provides a cost-effective solution and has been successfully applied in various areas, such as genome-wide association studies, population structure analysis, and marker-assisted selection.
Article
Plant Sciences
Virevol Thakro, Naveen Malik, Udita Basu, Rishi Srivastava, Laxmi Narnoliya, Anurag Daware, Nidhi Varshney, Jitendra K. Mohanty, Deepak Bajaj, Vikas Dwivedi, Shailesh Tripathi, Uday Chand Jha, Girish Prasad Dixit, Ashok K. Singh, Akhilesh K. Tyagi, Hari D. Upadhyaya, Swarup K. Parida
Summary: Identifying a bHLH transcription factor, CabHLH10, and its related genes in chickpea provides a potential molecular approach for breeding drought-tolerant and high-yielding cultivars.
Review
Genetics & Heredity
Gayacharan, Swarup K. Parida, Nupur Mondal, Rashmi Yadav, Harinder C. Vishwakarma, Jai C. Rana
Summary: Legumes play a crucial role in ensuring food and nutritional security as well as environmental sustainability. However, their yield and production have been hindered by various factors, leading to a decline in legume consumption and protein-related malnutrition in India. To address this, efforts have been made to utilize the vast collection of legume genetic resources conserved globally to identify ideal donors and enhance genetic gains. Large-scale phenotyping combined with omics-based science is being used to identify target traits. Additionally, wild relatives are being explored for pre-breeding to overcome genetic limitations in major legume crops.
FRONTIERS IN GENETICS
(2023)
Article
Agronomy
Philanim Wungmarong Shimray, C. Bharadwaj, B. S. Patil, S. Mukesh Sankar, Neeraj Kumar, Sneha Priya Pappula Reddy, Tripti Singhal, Venkatraman Hegde, Swarup K. Parida, Manish Roorkiwal, Rajeev K. Varshney, Preeti Verma
Summary: An association mapping panel of 380 chickpea genotypes was evaluated for yield-contributing parameters, focusing on seed weight and seed number. AMMI analysis identified ideal genotypes for these traits, providing strategic planning for yield improvement through component trait breeding.
Article
Biology
Arunima Mahto, Antima Yadav, P. V. Aswathi, Swarup K. Parida, Akhilesh K. Tyagi, Pinky Agarwal
Summary: By analyzing the transcriptomes and miRNomes of small-grained and large-grained indica rice, this study identified the crucial role of the S3 stage in enhancing grain size and discovered several transcription factor and miRNA families that influence grain size. A Domino effect model was proposed to explain the regulation of grain size. Additionally, a rice grain development database was established for easy access to the data generated in this study.
Article
Chemistry, Applied
Paras Sharma, Giridhar Goudar, Anil Kumar Chandragiri, R. Ananthan, K. Subhash, Anitha Chauhan, T. Longvah, Mohar Singh, Rakesh Bhardwaj, Swarup Kumar Parida, Amit Kumar Singh, Debasis Chattopadhyay, Debasis Chattopadhyay
Summary: A study evaluated the nutrient composition, anti-nutrients, and mineral composition of 38 ricebean accessions cultivated in India. The accessions showed variation in protein, dietary fiber, oligosaccharides, free sugars, resistant starch, iron, zinc, and selenium content. The study employed hierarchical clustering analysis and principal component analysis to analyze the diversity of nutrients and anti-nutrients across the ricebean accessions.
Review
Biochemistry & Molecular Biology
Udita Basu, Swarup K. Parida
Summary: This review explores the developmental similarities and peculiarities in chickpea and its close relatives pea and Medicago. Key features in chickpea which have potential in yield enhancement have been discussed. However, the developmental particularities and its potential in reforming the yield and nutritional value remain largely unexplored, despite advancements in next-generation sequencing and genomics tools.
PLANT MOLECULAR BIOLOGY
(2023)
