Chromosome-scale reference genome of an ancient landrace: unveiling the genetic basis of seed weight in the food legume crop pigeonpea (Cajanus cajan) DOI Creative Commons
Chun Liu,

Xipeng Ding,

Yuanhang Wu

и другие.

Horticulture Research, Год журнала: 2024, Номер 11(9)

Опубликована: Июль 24, 2024

Abstract Pigeonpea (Cajanus cajan) is a nutrient-rich and versatile food legume crop of tropical subtropical regions. In this study, we describe the de novo assembly high-quality genome for ancient pigeonpea landrace ‘D30’, achieved through combination Pacific Biosciences high-fidelity (PacBio HiFi) high-throughput chromatin conformation capture (Hi-C) sequencing technologies. The assembled ‘D30’ has size 813.54 Mb, with contig N50 10.74 scaffold 73.07 GC content 35.67%. Genomic evaluation revealed that contains 99.2% Benchmarking Universal Single-Copy Orthologs (BUSCO) achieves 29.06 long terminal repeat (LTR) index (LAI). Genome annotation indicated encompasses 431.37 Mb elements (53.02% genome) 37 977 protein-coding genes. Identification single-nucleotide polymorphisms (SNPs), insertions/deletions (indels), structural variations between published cultivar ‘Asha’ suggests genes affected by these may play important roles in biotic abiotic stress responses. Further investigation genomic regions under selection highlights enriched starch sucrose metabolism, 42.11% highly expressed seeds. Finally, conducted genome-wide association studies (GWAS) to facilitate identification 28 marker–trait associations six agronomic traits pigeonpea. Notably, discovered calmodulin-like protein (CcCML) harbors dominant haplotype associated 100-seed weight Our study provides foundational resource developing genomics-assisted breeding programs

Язык: Английский

Fashion meets science: how advanced breeding approaches could revolutionize the textile industry DOI
Santosh Gudi,

M. Pavan,

Praveenkumar Alagappan

и другие.

Critical Reviews in Biotechnology, Год журнала: 2024, Номер 44(8), С. 1653 - 1679

Опубликована: Март 7, 2024

Natural fibers have garnered considerable attention owing to their desirable textile properties and advantageous effects on human health. Nevertheless, natural lag behind synthetic in terms of both quality yield, as these attributes are largely genetically determined. In this article, a comprehensive overview the fiber production landscape over last 10 years is presented, with particular focus role scientific breeding techniques improving traits key crops like cotton, hemp, ramie, flax. Additionally, article delves into cutting-edge genomics-assisted techniques, including QTL mapping, genome-wide association studies, transgenesis, genome editing, potential enhancing crops. A user-friendly compendium 11226 available QTLs significant marker-trait associations derived from 136 associated diverse furnished. Furthermore, applications transcriptomics pivotal crops, elucidating distinct genes implicated augmenting investigated. information 11257 candidate/characterized or cloned sourced various emphasizing development high-quality collated. review sheds light current progress marker-assisted selection for each crop, providing detailed insights improved cultivars released different conclusion, it asserted that application modern tools holds tremendous catalyzing transformative shift industry.

Язык: Английский

Процитировано

14
Deciphering the genetic landscape of seedling drought stress tolerance in wheat (Triticum aestivum L.) through genome-wide association studies DOI Creative Commons
Santosh Gudi, Priyanka Halladakeri, Gurjeet Singh

и другие.

Frontiers in Plant Science, Год журнала: 2024, Номер 15

Опубликована: Март 4, 2024

Wheat is an important cereal crop constrained by several biotic and abiotic stresses including drought stress. Understating the effect of stress genetic basis tolerance to develop resilient, high-yielding wheat cultivars. In this study, we investigated effects on seedling characteristics in association panel consisting 198 germplasm lines. Our findings revealed that had a detrimental all under investigation with maximum shoot length (50.94% reduction) minimum germination percentage (7.9% reduction). To gain deeper understanding, conducted genome-wide analysis using 12,511 single nucleotide polymorphisms (SNPs), which led identification 39 marker-trait associations (MTAs). Of these MTAs, 13 were particularly noteworthy as they accounted for >10% phenotypic variance LOD score >5. These high-confidence MTAs further utilized extract 216 candidate gene (CGs) models within 1 Mb regions. Gene annotation functional characterization identified 83 CGs relevance genes encoded WD40 repeat domain, Myb/SANT-like WSD1-like BTB/POZ Protein kinase Cytochrome P450, Leucine-rich domain superfamily, BURP Calmodulin-binding protein60, Ubiquitin-like etc. Findings from study hold significant promise breeders provide direct assistance selecting lines harboring favorable alleles improved tolerance. Additionally, SNPs will enable marker-assisted selection potential genomic regions associated enhanced wheat.

Язык: Английский

Процитировано

13
Unlocking the hidden variation from wild repository for accelerating genetic gain in legumes DOI Creative Commons
Gurjeet Singh, Santosh Gudi,

Amandeep

и другие.

Frontiers in Plant Science, Год журнала: 2022, Номер 13

Опубликована: Ноя. 9, 2022

The fluctuating climates, rising human population, and deteriorating arable lands necessitate sustainable crops to fulfil global food requirements. In the countryside, legumes with intriguing but enigmatic nitrogen-fixing abilities thriving in harsh climatic conditions promise future security. However, breaking yield plateau achieving higher genetic gain are unsolved problems of legume improvement. Present study gives emphasis on 15 important crops, i.e., chickpea, pigeonpea, soybean, groundnut, lentil, common bean, faba cowpea, lupin, pea, green gram, back horse moth rice some forage legumes. We have given an overview world India’s area, production, productivity trends for all from 1961 2020. Our review article investigates importance gene pools wild relatives broadening base through pre-breeding alien introgression. also discussed integrating genomics, phenomics, speed breeding, engineering genome editing tools improvement programmes. Overall, breeding may undergo a paradigm shift once genomics conventional integrated near future.

Язык: Английский

Процитировано

37
Drought and heat stress: insights into tolerance mechanisms and breeding strategies for pigeonpea improvement DOI

Harmeet Singh Bakala,

Jomika Devi,

Gurjeet Singh

и другие.

Planta, Год журнала: 2024, Номер 259(5)

Опубликована: Апрель 15, 2024

Язык: Английский

Процитировано

8
Candidate Gene for Kernel-Related Traits in Maize Revealed by a Combination of GWAS and Meta-QTL Analyses DOI Creative Commons
Hailiang Dong,

Zelong Zhuang,

Jianwen Bian

и другие.

Plants, Год журнала: 2025, Номер 14(6), С. 959 - 959

Опубликована: Март 19, 2025

Maize kernel traits represent crucial agronomic characteristics that significantly determine yield potential. Analyzing the genetic basis of these is essential for improvement. In this study, we utilized 1283 maize inbred lines to investigate three kernel-related characteristics: length (KL), width (KW), and 100-kernel weight (HKW). We conducted a genome-wide association study (GWAS) on traits, resulting in identification 29 associated SNPs six candidate genes. Additionally, compiled quantitative trait loci (QTL) information 765 from 56 studies, meta-analysis QTL, identified 65 meta-QTLs (MQTLs). Among 23 MQTLs, found 25 functional genes reported related traits. 26 homologs across 19 MQTLs by utilizing affect rice grain compared significant detected with physical locations 3 were located within MQTL intervals, another 10 proximity being less than 2 Mb away, although they not included intervals. The results provide theoretical foundation elucidating advancing molecular marker-assisted breeding selection.

Язык: Английский

Процитировано

1
Performance under multi-environment trial for quantitative traits of rice (Oryza sativa L.) genotypes in North-West India (Punjab) DOI
Gurjeet Singh, Renu Khanna, Rajvir Kaur

и другие.

Ecological Genetics and Genomics, Год журнала: 2023, Номер 28, С. 100190 - 100190

Опубликована: Июль 4, 2023

Язык: Английский

Процитировано

12
Detection of consensus genomic regions and candidate genes for quality traits in barley using QTL meta-analysis DOI Creative Commons
Binbin Du,

Jindong Wu,

Meng Wang

и другие.

Frontiers in Plant Science, Год журнала: 2024, Номер 14

Опубликована: Янв. 11, 2024

Improving barley grain quality is a major goal in breeding. In this study, total of 35 papers focusing on quantitative trait loci (QTLs) mapping for traits published since 2000 were collected. Among the 454 QTLs identified these studies, 349 them mapped onto high-density consensus maps, which used QTL meta-analysis. Through meta-analysis, initial integrated into 41 meta-QTLs (MQTLs) with an average confidence interval (CI) 1. 66 cM, 88.9% narrower than that QTLs. MQTLs, 25 subsequently validated publications using genome-wide association study (GWAS). From ten breeder’s MQTLs selected. Synteny analysis comparing and wheat revealed orthologous relationships between eight 45 MQTLs. Additionally, 17 homologs associated rice within regions through comparative analysis. The findings provide valuable insights molecular marker-assisted breeding identification candidate genes related to barley.

Язык: Английский

Процитировано

4
Major abiotic stresses on quality parameters in grain legumes: impacts and various strategies for improving quality traits DOI
Uday Chand Jha, M. Shanthi Priya, Yogesh Dashrath Naik

и другие.

Environmental and Experimental Botany, Год журнала: 2024, Номер unknown, С. 105978 - 105978

Опубликована: Сен. 1, 2024

Язык: Английский

Процитировано

3
Meta-analysis of QTLs for drought, heat, and salinity tolerance identifies high-confidence MQTLs and candidate genes in chickpea (Cicer arietinum L.) DOI
Shubham Sharma, Jatin Sharma, Shayla Bindra

и другие.

Journal of Biosciences, Год журнала: 2025, Номер 50(2)

Опубликована: Март 22, 2025

Язык: Английский

Процитировано

0
Genetic dissection of yield and yield-related traits in mungbean based on QTL meta-analysis DOI Creative Commons
Binbin Du,

Qifei Wang,

Song Gao

и другие.

Frontiers in Genetics, Год журнала: 2025, Номер 16

Опубликована: Май 8, 2025

As an important food crop and nutritional source, mungbean has prioritized yield improvement as a key objective in breeding programs. In present study, we conducted QTL meta-analysis to integrate 660 QTLs related yield-related traits published over the past 20 years. A total of 590 initial were mapped onto high-density consensus map, resulting identification 72 meta-QTLs (MQTLs). These MQTLs unevenly distributed across 11 linkage groups (LGs) with average confidence interval (CI) 1.21 cM, which was 6.26-fold narrower than CI QTLs. Among these MQTLs, validated genome-wide association study (GWAS) for mungbean. Orthologous MQTL analysis revealed that 22 collinear 19 common bean traits. addition, breeder's screened from 339 gene models identified within regions. Twenty-two orthologs genes such seed germination, tiller number, plant height rice Arabidopsis regions using homology analysis. This contributes understanding genetic mechanisms provides new ideas

Язык: Английский

Процитировано

0