International Crops Research Institute for the Semi-Arid Tropics
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Assessing the impact of rice-wheat-maize residue decomposition rate and nutrient dynamics of residue and soil using different placement method in the IGP of India
Get PDFThe rice-wheat cropping system (RWCS) provides the world’s population with staple foods, and it is crucial to maintain global food demand and security. Food systems are a complex ecosystem and sustain many feedback mechanisms. Crop residue management is one of those feedback mechanisms that was assessed under conservation agriculture, and a decomposition study was analyzed for the rice-wheat cropping system using rice, wheat, and maize crop residue for decomposition rate and nutrients release under agricultural practices (zero till, raised beds). Different zero tillage techniques in Samastipur demonstrated an accelerated decomposition trend, which was especially noticeable in the straw from wheat and rice. At the same time, permanent bed systems showed a relatively larger residue mass, especially in the case of wheat and maize straw. Permanent bed systems (wheat-maize system), particularly those using wheat straw, held the largest amounts of residue mass when the total residue mass throughout the sites was taken into account. Samastipur showed higher nutrient release for all the rice residue in wheat, rice residue in maize, and wheat residue in rice except maize residue in rice as compared to the Karnal sites. Decomposition kinetics, modeled via a first-order exponential decay function, showed high correlations (R2: 0.941 to 0.996) across treatment methods. The research underscores the significant effect of agroecological factors on residue decomposition and nutrient release, irrespective of residue type, highlighting the importance of tailored residue management practices for enhanced nutrient cycling and sustainability. These findings contribute to the optimization of residue management strategies in RWCS, promoting sustainable agriculture practices in the face of climate change and increasing food security demands
Multi-environment analysis to unravel bread wheat core collection to identify donors for grain quality, phenology, and yield traits
No full textContext
Untapped wheat germplasm is conserved globally in genebanks. Evaluating it for grain quality and yield will help achieve nutritional and food security.
Aims
We aimed to evaluate the Indian National Genebank bread wheat core collection for grain quality, phenology and yield, to identify potential donor germplasm.
Methods
1485 accessions were grown at three locations in India during winter 2015–2016 to evaluate test weight, grain protein content, sedimentation value (SV), days to spike emergence, days to maturity, grain yield and thousand-grain weight (TGW).
Key results
Best linear unbiased estimates indicated mean protein of 13.3%, 14.7%, and 13.0% and yield of 73.0 g/m, 70.9 g/m and 66.6 g/m at Ludhiana, Pune, and Varanasi locations, respectively. The SV ranged from 26.6–65.6 mL and 17.7–66.6 mL at the Ludhiana and Pune locations, respectively. The top 10 accessions were identified for all the studied traits. Six high protein accessions, with consistent protein of more than 15% along with moderate Thousand-grain and test weights were further validated and assessed for stability across environments. Grain protein content was correlated negatively with thousand-grain weight and yield, but positively with days to maturity and spike emergence.
Conclusion
The identified accessions with high trait values could be used in future breeding programmes to develop high yielding biofortified cultivars to address protein malnutrition and also cultivars with suitable end-product quality.
Implications
The diversity in a core collection can be exploited to develop modern high yielding bread wheat cultivars with higher grain protein content and suitable end-product quality
Isolation, Characterization, and Expression Analysis of NAC Transcription Factor from Andrographis paniculata (Burm. f.) Nees and Their Role in Andrographolide Production
Get PDFAndrographis paniculata (Burm. f.) Nees is an important medicinal plant known for its bioactive compound andrographolide. NAC transcription factors (NAM, ATAF1/2, and CUC2) play a crucial role in secondary metabolite production, stress responses, and plant development through hormonal signaling. In this study, a putative partial transcript of three NAC family genes (ApNAC83, ApNAC21 22 and ApNAC02) was used to isolate full length genes using RACE. Bioinformatics analyses such as protein structure prediction, cis-acting regulatory elements, and gene ontology analysis were performed. Based on in silico predictions, the diterpenoid profiling of the plant’s leaves (five-week-old) and the real-time PCR-based expression analysis of isolated NAC genes under abscisic acid (ABA) treatment were performed. Additionally, the expression analysis of isolated NAC genes under MeJA treatment and transient expression in Nicotiana tabacum was performed. Full-length sequences of three members of the NAC transcription factor family, ApNAC83 (1102 bp), ApNAC21 22 (996 bp), and ApNAC02 (1011 bp), were isolated and subjected to the promoter and gene ontology analysis, which indicated their role in transcriptional regulation, DNA binding, ABA-activated signaling, and stress management. It was observed that ABA treatment leads to a higher accumulation of andrographolide and 14-deoxyandrographolide content, along with the upregulation of ApNAC02 (9.6-fold) and the downregulation of ApNAC83 and ApNAC21 22 in the leaves. With methyl jasmonate treatment, ApNAC21 22 expression decreased, while ApNAC02 increased (1.9-fold), with no significant change being observed in ApNAC83. The transient expression of the isolated NAC genes in a heterologous system (Nicotiana benthamiana) demonstrated their functional transcriptional activity, leading to the upregulation of the NtHMGR gene, which is related to the terpene pathway in tobacco. The expression analysis and heterologous expression of ApNAC21 22 and ApNAC02 indicated their role in andrographolide biosynthesis
Genome-wide association study reveals the genetic basis of amino acids contents variations in Peanut (Arachis hypogaea L.)
Get PDFPeanut is a significant source of protein for human consumption. One of the primary objectives in peanut breeding is the development of new cultivars with enhanced nutritional values. To further this goal, a genome-wide association study (GWAS) was conducted to analyze seed amino acids contents in 390 diverse peanut accessions collected worldwide, mainly from China, India, and the United States, in 2017 and 2018. These accessions were assessed for their content of 10 different amino acids. Variations in amino acids contents were observed, and arginine (Arg) was found to have the highest average value among all the amino acids quantified. The geographical distribution of the accessions also revealed variations in amino acids contents. High and positive correlation coefficients were observed among the amino acids, suggesting linked metabolic pathways or genetic regulation. A total of 88 single nucleotide polymorphisms (SNPs) spanning various chromosomes were identified, each associated with different amino acids. By using a combination of GWAS, expression anlaysis, and genomic polymorphisim comparisions, the Ahy_A09g041582 (LAC15) gene located on chromrosome A09 was identified as the key candidate which might be involved in plant growth and regulation and may alter amino acids levels. Expression analysis indicated that Ahy_A09g041582 has higher expressions in the shells and seeds than other genes located in the candidate region. This study may help with marker-based breeding of peanuts with higher nutritional value and offers fresh insights into the genetic basis of the amino acids contents of peanuts
Insights into the population dynamics of phytophthora species associated with arecanut fruit rot disease
No full textPhytophthora, a ubiquitous filamentous oomycete, causes huge yield losses and is fatal to arecanut palms in case of severe infection. From 2014 onwards, a severe fruit rot epidemic has been recorded during the South-West monsoon season in major arecanut-growing states of South India. We have assessed the diversity and delineated the population structure of Phytophthora isolates infecting arecanut in India using a combination of morphological traits, multi-gene profiling, haplotype analysis, and pathogenicity. Ninety-eight Phytophthora isolates were obtained from infected samples collected from disease-endemic regions of Karnataka, Kerala, and Goa states in southern India from 2014 to 2019. Morphological traits coupled with phylogenetic analysis using the loci ITS, β-tub, TEF-1α, and Cox-II identified the A2 mating type of P. meadii as the predominant species together with two isolates of homothallic P. heveae. Linkage disequilibrium analysis revealed significant diversity in the form of single nucleotide polymorphisms (SNPs) from the concatenated sequence dataset. Population structure analysis using 590 SNPs demonstrated the existence of four population groups (sub-populations at K = 4 and K = 2) and significant diversity in the geo-distant Phytophthora populations. In summary, 22 haplotypes were identified from the representative 40 isolates with higher haplotype diversity of 1.23 and relatively varying haplotype frequency. Pathogenicity assays confirmed that both the species of Phytophthora were pathogenic to arecanut, while P. meadii coastal region isolates exhibited more virulence compared to others
Millets for Nutrition
Get PDFThe global food system faces many complex challenges, including hunger, malnutrition and diet-related diseases, an ever-growing global population that needs sufficient and healthy food, the climate emergency and the depletion of natural resources. We need to unlock the great potential
millets hold as an affordable nutritious food, a worthy
component for global healthy diets, and a crop that can withstand climate change (FAO, 2023)
A molecular perspective on the role of FERONIA in root growth, nutrient uptake, stress sensing and microbiome assembly
Get PDFBackground
Roots perform multifaceted functions in plants such as movement of nutrients and water, sensing stressors, shaping microbiome, and providing structural support. How roots perceive and respond above traits at the molecular level remains largely unknown. Despite the enormous advancements in crop improvement, the majority of recent efforts have concentrated on above-ground traits leaving significant knowledge gaps in root biology. Also, studying root system architecture (RSA) is more difficult due to its intricacy and the difficulties of observing them during plant life cycle which has made it difficult to identify desired root traits for the crop improvement. However, with the aid of high-throughput phenotyping and genotyping tools many developmental and stress-mediated regulation of RSA has emerged in both model and crop plants leading to new insights in root biology. Our current understanding of upstream signaling events (cell wall, apoplast) in roots and how they are interconnected with downstream signaling cascades has largely been constrained by the fact that most research in plant systems concentrate on cytosolic signal transduction pathways while ignoring the early perception by cells’ exterior parts. In this regard, we discussed the role of FERONIA (FER) a cell wall receptor-like kinase (RLK) which acts as a sensor and a bridge between apoplast and cytosolic signaling pathways in root biology.
Aim of the review
The goal of this review is to provide valuable insights into present understanding and future research perspectives on how FER regulates distinct root responses related to growth and stress adaptation.
Key scientific concepts of review
In plants, FER is a unique RLK because it can act as a multitasking sensor and regulates diverse growth, and adaptive traits. In this review, we mainly highlighted its role in root biology like how it modulates distinct root responses such as root development, sensing abiotic stressors, mechanical stimuli, nutrient transport, and shaping microbiome. Further, we provided an update on how FER controls root traits by involving Rapid Alkalinization Factor (RALF) peptides, calcium, reactive oxygen species (ROS) and hormonal signaling pathways.. We also highlight number of outstanding questions in FER mediated root responses that warrants future investigation. To sum up, this review provides a comprehsive information on the role of FER in root biology which can be utilized for the development of future climate resilient and high yielding crops based on the modified root system
Integrating Multidimensional Sustainability Assessment into Decisions and Policies for Promoting Sustainable Farming in India
Get PDFThe study explores integrating a multidimensional sustainability framework to promote sustainable farming practices in India, focusing on the diverse agroecological zones of Latur and Solapur in Maharashtra. These two districts, chosen for their differing climatic and socio-economic conditions, showcase unique agricultural practices and resource use. Latur leans toward traditional farming with cash crops like soybean and sugarcane, while Solapur embraces a more diverse cropping pattern that includes horticulture and floriculture, with crops like guava, grapes, and chrysanthemums. The study’s careful approach, including stratified sampling and household categorization into farm household typologies, highlights its commitment to capturing the complexity of regional diversity and socio-economic challenges. The study identifies two distinct farm types in each district, differentiated by socio-economic factors such as land ownership, income, and access to irrigation. Farm Type 2 households, with larger landholdings and better resource access, tend to fare better in sustainability. In contrast, Farm Type 1 households, constrained by limited resources and lower education levels, struggle with weaker performance. This disparity underscores systemic inequities that demand targeted interventions to support the most vulnerable. Using the Multidimensional Sustainability Assessment Tool (MSAT), the study evaluates sustainability across five key areas: economic, environmental, social, human well-being, and productivity. Both districts perform reasonably well in water management and health but show major weaknesses in economic resilience and biodiversity conservation. Household-level analysis reveals more profound disparities often masked by aggregate scores, with many households falling short in income, education, and gender equity. This emphasizes the need for disaggregate level analysis and inclusive policies addressing systemic and localized issues. The study offers clear recommendations for improving the sustainability of mixed-farming systems. Localized solutions should address unique challenges in each district, such as providing better access to modern tools in Solapur and enhancing access to institutional credit in both regions. Encouraging biodiversity-friendly farming and improving gender equity can tackle systemic gaps while replicating successful practices from better-performing farm types can help uplift others. Targeted financial and educational support for marginalized households is also crucial for fostering equitable development. In conclusion, the study highlights the interconnected challenges of resource distribution, technological advancement, and socio-economic equity in Maharashtra’s farming systems. While some progress has been made, systemic vulnerabilities persist, requiring a comprehensive and multidimensional approach. The MSAT framework provides valuable insights to develop tailored strategies consisting of bundled solutions, paving the way for resilient, inclusive, and sustainable agricultural practices in India
Understanding genetic diversity in drought-adaptive hybrid parental lines in pearl millet
Get PDFInformation on genetic diversity and population structure is helpful to strategize enhancing the genetic base of hybrid parental lines in breeding programs. The present study determined the population structure and genetic diversity of 109 pearl millet hybrid parental lines, known for their better adaptation and performance in drought-prone environments, using 16,472 single nucleotide polymorphic (SNP) markers generated from GBS (genotyping-by-sequencing) platforms. The SNPs were distributed uniformly across the pearl millet genome and showed considerable genetic diversity (0.337), expected heterozygosity (0.334), and observed heterozygosity (0.031). Most of the pairs of lines (78.36%) had Identity-by-State (IBS) based genetic distances of more than 0.3, indicating a significant amount of genetic diversity among the parental lines. Bayesian model-based population stratification, neighbor-joining phylogenetic analysis, and principal coordinate analysis (PCoA) differentiated all hybrid parental lines into two clear-cut major groups, one each for seed parents (B-lines) and pollinators (R-lines). Majority of parental lines sharing common parentages were found grouped in the same cluster. Analysis of molecular variance (AMOVA) revealed 7% of the variation among subpopulations, and 93% of the variation was attributable to within sub-populations. Chromosome 3 had the highest number of LD regions. Genomic LD decay distance was 0.69 Mb and varied across the different chromosomes. Genetic diversity based on 11 agro-morphological and grain quality traits also suggested that the majority of the B- and R-lines were grouped into two major clusters with few overlaps. In addition, the combined analysis of phenotypic and genotypic data showed similarities in the population grouping patterns. The present study revealed the uniqueness of most of the inbred lines, which can be a valuable source of new alleles and help breeders to utilize these inbred lines for the development of hybrids in drought-prone environments
Genome-wide association analysis for drought tolerance and component traits in groundnut gene pool
Get PDFThe potential production and productivity of groundnuts are limited due to severe drought stress associated with climate change. The current study aimed to identify genomic regions and candidate genes associated with drought tolerance and component traits for gene introgression and to guide marker-assisted breeding of groundnut varieties. Ninety-nine genetically diverse groundnut genotypes were phenotyped under drought-stressed and non-stressed field conditions in 2018/19 and 2019/20, and using the LeasyScan platform under non-stressed conditions in 2019/20 at the International Crops Research Institute for the Semi-Arid Tropics (ICRISAT)/India. The samples were genotyped using 48 K single nucleotide polymorphisms (SNPs) markers at the University of Georgia/USA. Phenotypic data was collected on 17 agronomic traits and subjected to statistical analyses. The SNP data were computed, and population structure was inferred using a Bayesian clustering method in Structure version 2.3.4, while linkage disequilibrium was calculated using the GAPIT program in R software. Marker-trait associations were deduced using Tassel 5.2.86. Significant phenotypic variations were recorded for drought tolerance and the assessed agronomic traits. GWAS analysis using PCA + K and Q + K models identified significant SNPs associated with leaf area (1 SNP), leaf area Index (1 SNP), specific leaf area (1 SNP), leaf relative water content (43 SNPs), number of primary branches (1 SNP) and hundred seed weight (1 SNP). Forty-seven and one marker-trait associations were detected under drought-stressed and non-stressed conditions, respectively. The candidate genes and markers identified in the current study are useful for accelerated groundnut breeding targeting drought tolerance and market-preferred traits