Future Breeding Programs Research Articles

Investigation of growth traits in Turkish Merino lambs using multi-locus GWAS approaches: Middle Anatolian Merino

This study explored the genetic basis of growth traits in Middle Anatolian Merino lambs using multi-locus genome-wide association study (GWAS) analyses. Descriptive statistics indicated moderate heritability (h² = 0.363) for birth weight (BW) and (h² = 0.309) for weaning weight (WW), both statistically significant (p < 0.001). Strong genetic correlations were observed between WW and BW (rG = 0.922) and WW and Kleiber ratio (KR, rG = 0.896), implying that simultaneous improvements may be possible through targeted selection. Five multi-locus methods (mrMLM, FASTmrMLM, pLARmEB, FASTmrEMMA, and ISIS EM-BLASSO) were used to identify the polygenic basis of the traits. For BW and WW, 20 and 18 significant SNPs (LOD ≥ 5) were detected, respectively, with some SNPs co-detected by multiple methods. In contrast, only 10 significant SNPs were identified for KR, all exclusively by the ISIS EM-BLASSO approach. Pathway analyses within ± 100 Kb of associated SNPs revealed genes and pathways influencing these traits, which could be leveraged in future breeding programs for enhanced growth performance. The identified SNPs, particularly those associated with BW and WW traits, could facilitate genomic selection if validated in larger and more diverse populations.

PtrA, Piz-t, and a novel minor-effect QTL (qBR12_3.3–4.4) collectively contribute to the durable blast-resistance of rice cultivar Tainung 84

BackgroundRice blast caused by Pyricularia oryzae is a major threat to rice production worldwide. Tainung 84 (TNG84) is an elite japonica rice cultivar developed through the traditional pedigree method. It has maintained superior blast resistance since its release in 2010. This study aimed to investigate the genetic factors underlying the durable resistance of TNG84 in Taiwan.ResultsQuantitative trait locus (QTL) mapping was conducted using 122 F2 individuals and F2:3 families derived from the cross of TNG84 and a susceptible japonica cultivar Tainan 11 (TN11). Using 733 single nucleotide polymorphisms (SNPs) obtained through genotyping-by-sequencing and three P. oryzae isolates (D41-2, 12CY-MS1-2, and 12YL-TT4-1) belonging to different physiological races and Pot2 lineages, a major QTL was identified in the region of 52–54 cM (9.54–15.16 Mb) on chromosome 12. Fine-mapping using 21 F5:6 recombinants delimited the QTL to a 140.4-kb region (10.78 to 10.93 Mb) containing the known resistance gene Ptr. Sequencing analysis indicated that TNG84 carries the resistant PtrA allele and TN11 carries the susceptible PtrD allele. Investigation of the Ptr haplotypes in 41 local japonica rice cultivars revealed that eight PtrA-containing cultivars (19.5%) consistently exhibited good field resistance in Taiwan from 2008 to 2024. Subsequently, a few F5:6 lines (P026, P044, P092, and P167) lacking the resistant Ptr allele were observed to exhibit a resistant phenotype against P. oryzae 12YL-TT4-1-lab. Trait-marker association analyses using eight F6:7 homozygous recombinants, 378 BC1F2 from P044 backcrossed to TN11, and 180 BC1F2 from P092 backcrossed to TN11, identified Piz-t on chromosome 6 and a new QTL located between 3.3 Mb and 4.4 Mb on chromosome 12 (designated as qBR12_3.3–4.4). Analysis of 12 selected BC1F2:3 lines derived from P044 demonstrated that in the absence of Ptr and Piz-t, qBR12_3.3–4.4 alone reduced the disease severity index from approximately 6.3 to 3.9.ConclusionsPtrA is likely the primary gene responsible for the broad-spectrum and durable resistance of TNG84. Piz-t confers narrow-spectrum resistance, while qBR12_3.3–4.4 contributes partial resistance. The discovery of qBR12_3.3–4.4 has provided a new source of blast resistance, and the markers developed in this study can be utilized in future breeding programs.

Deciphering genetic characteristics of South China and North China indigenous pigs through selection signatures

BackgroundIndigenous pig breeds in China have accumulated significant genetic diversity due to regional selection pressures. Investigating the selection signatures of these populations helps to understand their adaptive evolution and contributes to genetic improvement programs.ResultsWe collected whole-genome sequencing data from 133 individuals, including South China and North China indigenous pigs and Asian wild boars. After data filtering, we retained 31,521,978 high-quality SNPs. Population structure analysis using PCA revealed distinct genetic clustering among these populations. Selection signature detection identified 5,227 loci under selection in South China indigenous pigs and 5,800 in North China indigenous pigs compared to Asian wild boars. Candidate genes were enriched in immune response pathways, reproductive traits, and pigmentation pathways. South China indigenous pigs exhibited selection signals for fat deposition and immune responses, while North China indigenous pigs showed stronger signals related to growth, blood physiology, and reproductive performance. Additionally, key genes such as MC1R and KIT were associated with coat color variation, and IGF1R and IGF2R were linked to growth regulation.ConclusionOur results demonstrate that indigenous pigs in China have undergone selection for distinct traits aligned with their regional environments and farming systems. South China indigenous pigs have been selected for traits related to fat deposition and immunity, while North China indigenous pigs have been selected for growth and reproductive traits. The findings offer crucial insights into the genetic architecture of indigenous pig breeds, providing a valuable foundation for future genetic breeding programs.

Marker Assisted Selection: A Novel Approach for Crop Improvement

The process of marker-assisted selection, or marker-aided selection (MAS), selects a trait of interest indirectly by considering a marker linked to the trait (e.g., quality, productivity, disease resistance, and biotic stress tolerance) rather than the trait itself. This integration of marker data with traditional selection approaches has become a widely studied and recommended method for advancing breeding programs. This technique has been extensively researched and recommended for animal and plant breeding. Here, we combine marker data with conventional selection to choose the best candidate for a future breeding program. Nowadays, the majority of MAS investigations employ DNA-based markers such as microsatellites, single nucleotide polymorphisms (SNPs), random amplification of polymorphic DNA (RAPD), amplified fragment length polymorphism (AFLP), and restriction fragment length polymorphism (RFLP). In this case, we discussed several kinds, techniques, and other features of marker Assisted Selection.

Multi-trait Analysis and Clustering of Forage Pearl Millet Genotypes in Semi-arid Conditions

The present study evaluated genetic variability and trait associations in 103 forage pearl millet genotypes (97 genotypes and 6 checks) across three distinct environments (e.g., the Kharif season of 2022 (E1), Summer season of 2023 (E2), and Kharif season of 2023 (E3)) during 2022-23. Sixteen morphological traits were assessed using a randomized complete block design with two replications. Significant differences were observed among genotypes, environments, and genotype × environment interactions. Correlation analysis identified key traits positively associated with green fodder yield, such as leaf length, leaf width, and plant height at first cut. Principal component analysis revealed that four principal components explained 72% of the total variability, with the first component influenced by leaf count and width. Hierarchical cluster analysis grouped genotypes into five clusters, with Cluster IV showing superior forage traits. This study identifies promising genotypes for future breeding programs focused on improving forage productivity in arid and semi-arid regions.

Assessment of genetic diversity and population structure analysis in Himalayan garlic genotypes from Sikkim using SSR markers.

Garlic (Allium sativum L.) is an important crop with significant medicinal and culinary uses. Understanding the genetic diversity and population structure of Himalayan garlic genotypes from Sikkim is crucial for effective breeding and conservation efforts. This study aims to analyze the genetic diversity among 60 Himalayan garlic genotypes collected from various altitudinal locations of Sikkim, India, using 27 Simple Sequence Repeats (SSR) markers. The genetic diversity was assessed using SSR markers, which revealed substantial variation among the genotypes. The number of alleles (Na) ranged from 1.13 to 2.00, while the major allele frequency (MAF) varied from 0.672 to 0.963. The observed heterozygosity (Ho) ranged from 0.0667 to 0.475, indicating moderate genetic diversity. Population structure analysis using STRUCTURE software grouped the genotypes into three distinct sub-populations, suggesting genetic differentiation not solely based on leaf morphology. Analysis of Molecular Variance (AMOVA) showed that genetic variation was more significant among individuals within populations (41%) than among populations (16%). UPGMA dendrogram and Principal Coordinates Analysis (PCoA) further confirmed the genetic relationships among the genotypes. This study reveals significant genetic diversity among Himalayan garlic genotypes from Sikkim, with clear genetic differentiation observed within and between populations. The results highlight the importance of both leaf morphology types and genetic structure in understanding the genetic basis of phenotypic variation in garlic. The finding provides valuable insights for future breeding programs and conservation strategies, emphasizing the need to consider morphological and genetic data for effective germplasm management and improvement of garlic cultivars.

Novel Genomic Regions and Gene Models Controlling Copper and Cadmium Stress Tolerance in Wheat Seedlings

Heavy metal pollution is a global issue that affects plant growth and human health. Copper and cadmium are two significant heavy metals that have become more concentrated in many soils. These metals are taken up by many plants, including wheat, and can cause various diseases in humans. The most effective way to mitigate the harmful effects of heavy metals is to grow tolerant wheat genotypes. In the current study, two different pot experiments were conducted to understand the genetic control of copper and cadmium tolerance in wheat seedlings. Two populations were used in this study, consisting of 92 genotypes for the copper experiment and 73 genotypes for the cadmium experiment. In both experiments, a replicated complete block design with three replications was used. Highly significant differences were found between the tested genotypes for all studied traits in both metals, except for root weight and the ratio between shoot weight and root weight under cadmium contamination. Single-marker analysis was performed for all significant traits, and a total of 265 and 381 markers were found to be significantly associated with seedling traits under copper and cadmium conditions, respectively. Of these markers, only eight were commonly associated with the tolerance to both metals. These markers were located within five different gene models that were functionally annotated to control heavy metal tolerance. Gene enrichment of the five identified genes revealed two key genes that significantly influenced eight biological processes, six molecular functions, and three Kyoto Ecyclopedia of Genes and Genomes (KEGG) pathways involved in heavy metal tolerance. The sources of the eight markers and their associated genes were identified in twelve genotypes, including one Egyptian and one Kazakhstani genotype, which showed superior responses to copper and cadmium, respectively. These genes and the genotypes carrying them are crucial for future breeding programs aimed at enhancing heavy metal tolerance in wheat.

Combining ability studies in desi cotton (Gossypium arboreum L.) genotypes

BackgroundStudies on genetic variation and combining ability are essential tools to employ the suitable breeding programme, particularly for hybrid production, to exploit the heterosis in cross-pollinated crops like cotton. Thus, combining ability studies in desi cotton (Gossypium arboreum L.) was carried out using 13 diverse parents through diallel mating design, evaluating 78 F1 hybrids along with their parents, without reciprocals using Griffing’s and Hayman’s approaches.ResultsGenotypes H 509, AC 3265, AKH 496, and PBN 565 exhibited superior per se performance, indicating their potential use as parents in future breeding programs to develop superior hybrids. The general combining ability (GCA) effect of the genotypes revealed that AC 3097 and AKA 13-SP1 were good general combiners for most traits in this study. Genotypes PBS 1127-SP1, AKH 496, H 509, N11-54–31-32, and AKA 13-SP1 exhibited strong combining ability, contributing to a significant specific combining ability (SCA) effect in seven selected crosses (AC 3265 × PBS 1127-SP1, AKH 496 × H 509, AKH 496 × AC 3097, PBS 1127-SP1 × N11-54–31-32, AC 3216 × AKA 13-SP1, H 503 × N11-54–31-32, and H 509 × AKA 13-SP1) for yield improvement. These crosses showed positive heterosis in a positive direction.ConclusionFrom the present study, five genotypes (AC 3097, AKA 13-SP1, N11-54–31-32, AC 3265, and H 509) were identified as good general combiners for producing hybrids, and seven combinations showed a promising hybrid for future breeding programs.

Multivariate analysis for agronomic, physiological, macro, and micronutrient traits of exotic vegetable amaranth genotypes

The genus amaranth is comprised of 60–70 species. This climate hardy plant is grown as a vegetable as well as cereal crop in many areas of the world. Current study multivariate analysis was used to characterize the exotic vegetable amaranth genotypes. The experiment was conducted in the research area of Muhammad Nawaz Shareef University of Agriculture, Multan under RCBD design with three replications of 50 exotic amaranth genotype. 22 different variables were investigated for the principal component and cluster analysis using different software packages in R studio. According to the results of principal component analysis the first five PCs had eigenvalues greater than one and they explained the 84.59% diversity in exotic vegetable amaranth accessions. First two principal components explained 57.31% of variation. Traits that loaded highly for first PC include moisture (-0.892), carbohydrates (0.938), energy (0.920), stomatal conductance (0.803), net photosynthesis (0.795) and dry weight (0.770). The traits which impacted the second PC highly include protein (0.692), fat (-0.571), nitrogen (0.692), calcium (0.545), phosphorus (0.908), zinc (0.960), iron (0.826) and potassium (0.872). For future breeding program the selection based on these results will be effective for crop enhancement drive in exotic vegetable amaranth genotypes. Hierarchical clustering was done and dendrogram split the 50 genotypes into 5 groups using silhouette method. The pairwise clustering revealed that intra cluster distance is smaller than inter cluster distance. The maximum inter cluster distance was observed between cluster I and II (9.88); between cluster I and III (9.47); between cluster II and IV (9.27).Clinical trial number Clinical trial number not applicable.

Genetic Assessment of a Captive Population of Eurasian Stone-Curlew (Burhinus oedicnemus), Source for the Reinforcement of Wild Populations

Although ex situ conservation programs are increasingly valuable support tools for in situ conservation measures, success depends on these captive individuals to be genetically representative of the recipient population. The Eurasian stone-curlew (Burhinus oedicnemus) inhabit steppes that represent some of the most degraded and exploited habitats worldwide. A captive breeding program was implemented in Morocco as a pre-emptive effort for the conservation of the North African subspecies Burhinus oedicnemus saharae. However, the genetic origins of the founders of the captive flock were unknown. We applied a multi-locus approach to characterize the genetic ancestry of the current captive breeding flock by comparing it to wild populations from both Western and Eastern Morocco. Mitochondrial DNA and microsatellite markers were employed to assess levels of genetic diversity and relatedness within each sample, as well as potential genetic differentiation between wild and captive samples through PCA and admixture analyses. We recovered similar genetic diversity estimates, low levels of relatedness, and little differentiation between captive and wild samples. These results confirmed the Moroccan origin of the founders. We provide recommendations for the optimization of the Eurasian Stone Curlew conservation breeding program but also for future conservation breeding programs to ensure the effective conservation of genetic diversity and wild populations.

Response of Cowpea (Vigna unguiculata L. Walp) Accessions to Moisture Stress

Cowpea is one of the most important leguminous crops in Sub-Saharan Africa (SSA), and moisture stress is among the constraints affecting its productivity. This study was conducted to understand the response of cowpea accessions to moisture stress. A total of 255 cowpea accessions from Togo and four checks from the International Institute of Tropical Agriculture (IITA), were assessed. The trials were conducted in the glasshouse and an open field (which was divided into moisture-stressed (MS) and non-moisture-stressed fields (NMS)). In the non-moisture-stressed environment compared to the moisture-stressed environment, there was a greater heritability for agronomic traits such as biomass, seed weight, and pod weight. The accessions with the highest seed weights (yield-related traits), surpassing the checks under both moisture-stressed and non-moisture-stressed conditions in the field, were six viz.: RK173 (49.8 g (MS); 90.4 g (NMS)), RP225 (34.6 g (MS); 119.9 g (NMS)), RP232 (33.4 g (MS); 51.9 g (NMS)), RM357 (27.9 g (MS); 62.9 g (NMS)), RK148 (23.9 g (MS); 63.4 g (NMS)), and Vu081_2_2 (21.8 g (MS); 46.7 g (NMS)). The most promising accession was RK173; this was ranked first under the moisture-stressed condition and ranked second under the non-moisture-stressed condition with a loss in weight of 44.9% due to drought stress. Of the top 20 accessions that recovered after watering resumed in the glasshouse screening, only the following 9 had a recovery percentage higher than 5% viz.: RS029 (34.5%), RK014 (14.2%), RS114 (9.6%), RK121 (8.3%), RS007 (7.6%), RK123 (7.3%), RS037 (7.3%), RS101 (5.6%), and RS108 (5.1%). The best line and those with a higher recovery percentage could be exploited further in order to improve them in future drought breeding programs by crossing them with lines susceptible to drought or using other drought breeding techniques.

Assessment of Terminal Heat Stress Tolerance in Doubled Haploids Derived from Synthetic Hexaploid Wheat (Triticum aestivum L.) Using Genetic Variability and PCA-based Cluster Analyses

A comprehensive study was conducted on germplasm derived from two synthetic wheats and two hexaploid wheats i.e., SHW14102 x BWL4444, SHW14102 x BWL3531, and SHW3761 x BWL4444 to identify the potential doubled haploids that can withstand high temperatures, particularly at the reproductive stage during crop seasons viz., 2020–2021 and 2021–2022. The doubled haploid lines were selected based on phenotypic characteristics using genetic variability analysis. In the preliminary field trial evaluation, 100 lines were selected based on high phenotypic uniformity for further testing against terminal heat stress conditions and high yield potential. Among these, 17 lines had relatively higher values for days to biomass yield, grain yield, thousand-grain weight, and harvest index and relatively lower values for maturity, and grain filling duration based on principal component and cluster analyses. Principal component analysis (PCA) based cluster analysis exhibited that, clusters II and III had clear separation compared to cluster I. All three clusters were analyzed according to their means and standard deviations. The mean values for GYP (385.07), BMYP (1162.37), and TGW (38.13) were relatively higher in cluster 1 than in other clusters. Cluster 2 exhibited a higher value for DH (89.14), SL with awns (18.21), and GFD (18.19) while cluster 3 showed a higher value for HI (41.02). Thus, it was concluded that cluster I demonstrated superior performance in grain yield per plant, biomass yield per plant, and thousand-grain weight, indicating its overall higher productivity compared to the other clusters under terminal heat stress conditions and suggesting them as potential germplasm for future breeding programs.

Identification of Best General and Specific Combiners for Soybean Improvement

The present study on general combining ability effects and specific combining ability effects involves 15 parents viz., lines RKS 18, RKS 113, AUKS 199, AUKS 200, AUKS 212, RVSM 2011-35, JS 20-98, AUKS 202, AUKS 208, AUKS 218, JS 21-72, NRC 165 and tester JS 20-34, NRC 138, SL 958 with their 36 F1 hybrid through Line x Tester mating system. The present investigation was undertaken using Randomized Block Design with three replications. The combining ability effects were estimated for thirteen characters viz., days to 50% flowering, days to maturity, plant height, number of branches per plant, number of pods per plant, pod length, number of seeds per pod, 100-Seed weight, seed yield per plant, biological yield per plant, harvest index, protein content and oil content. The result showed that gca effects of parents and sca effects of hybrids were significant differed. Among the parents, AUKS 212 was found to be good general combiner based on the per se performance and gca effects for seed yield and other contributing traits and four hybrids AUKS 113 x SL 958, RVSM 2011-35 x NRC 138, AUKS 199 x JS 20-34 and NRC 165 x JS 20-34 were superior high sca effects for seed yield and yield contributing traits. These crosses can be utilized in future breeding programmes and exploitation of better segregants through pedigree method or single seed descent method in advance generations for improvement of yield and yield attributes coupled with quality traits sound soybean genotypes.

Pilot Evaluation of Field Pea Accessions Under Water Deficit Conditions

Field pea, a key pulse crop for sustainable agriculture, faces significant production challenges due to drought, exacerbated by extreme climatic changes. This study evaluated 17 field pea plant introductions (PIs) and two commercial varieties under greenhouse conditions to assess their performance, determine the relationships between agronomic traits and grain yield (GY), and identify genotypes with stable yields under drought stress. Two water treatments were applied: 100% field capacity for well-watered (WW) and 60% field capacity for water deficit (WD) conditions, with drought stress imposed 21 days after planting. Significant genotypic variation was observed under both conditions. Water deficit significantly reduced GY, the number of pods per plant (NPP), plant height (PH), aboveground dry vegetative biomass (ADVB), and days to maturity (DTM) while increasing stomatal density on both adaxial (SD.ADX) and abaxial leaf surfaces (SD.ABX). Traits associated with GY in WW, such as NPP, PH, ADVB, and SD.ADX, showed stronger correlations under WD, with DTM being significantly associated with GY only in WD. Top-performing genotypes in both conditions exhibited higher pod numbers, increased aboveground dry vegetative biomass, late maturity, and lower adaxial stomatal density. Notably, PI 272215 was identified as a top performer under both conditions, with an 88% yield stability index. PI 180702 demonstrated comparable performance to PI 272215 but with no yield loss under the same conditions. These findings can be used for future field pea breeding programs aimed at developing drought-tolerant field pea varieties.

Characterization of genetic resistance to cucumber mosaic virus (CMV) in spinach (Spinacia oleracea L.)

ObjectiveCucumber mosaic virus (CMV) is a significant pathogen causing quality loss in spinach. Although host genetic resistance is the primary method of managing CMV infection in this crop, CMV resistance genes are not widely utilized in spinach breeding programs as the genetic and molecular mechanisms underlying resistance are not yet fully understood. CMV infections were therefore studied in different lines of spinach plants, and their progeny, to develop a model of the genetic basis of CMV resistance.ResultsVisual observations and RT-PCR assays revealed that three monoecious lines (03-258, 03-263, and 03-336) were susceptible to CMV, while three traditional resistant cultivars and a near-isogenic line (NIL-M) exhibited resistance. A dioecious line (03–009) consisted of susceptible and resistant plants. Notably, resistant plants did not exhibit the lesions typical of the hypersensitive response. Genetic analysis of progeny from the cross NIL-M × 03-336 indicated that a single dominant allele (designated SRCm1, standing for Spinach Resistance to CMV 1) controlled CMV resistance; analysis of sib-cross progeny populations derived from line 03–009 supported this conclusion. These results offer a valuable model for CMV resistance in spinach and will enhance future breeding programs.

Evaluation of Polyethylene Glycol (PEG-6000) Induced Drought Stress Tolerant Mungbean Genotypes by using Correlation, Principal Component, Hierarchical Clustering and Multi-Trait Genotype-Ideotypes Distance Index Analysis

Determining a plant's ultimate population under water stress requires seedling establishment and germination. The current study was aimed at identifying mungbean genotypes that were tolerant to drought stress. The treatments were: Factor A: polyethylene glycol 6000 (PEG-6000) inducing different levels of water potential (i.e., 0.0 (distilled water as a control), -0.7, -1, -2, and -4 bar) and Factor B: Thirty-three mungbean genotypes, collected from various national and international organizations. Each genotype's seeds were planted in a petri dish (9 cm diameter) containing sand bed and were moistened with appropriate amounts of water potential and left to develop into seedlings of all genotypes for up to 10 days. The findings showed that when PEG-6000 concentration was raised, germination, shoot and root length, and the associated fresh and dry weights decreased significantly. Among these tested genotypes, BMX-08010-2, BMX-08009-7, BMX-01015, BARI Mung-8, BARI Mung-2, and BU Mung-2 were found to be tolerant against drought stress based on their % germination and germination indices, as well as their seedling traits. Principal component analysis, multi-trait genotype-ideotype distance index (MGIDI), two-dimensional heat map, and hierarchical clustering analysis also revealed the same genotypes to be stable and capable of withstanding water deficiency stress. In response to water stress, the genotypes BARI Mung-1, BARI Mung-3, BU Mung-4, and BMX-05001 showed poor germination indices along with relatively poor seedling characteristics. The results of the present research provide criteria for the selection of drought-tolerant mungbean genotypes in future breeding programs.

Exploring Stable Low Soil Phosphorous Stress Tolerance in Rice Using Novel Allele Recombination From Oryza rufipogon

ABSTRACTAdvent of changing climatic conditions along with nutrient deficient soils adversely affects the environment for the rice production. Wild introgression lines derived from KMR3 and Oryza rufipogon population were evaluated in six environments, including optimum and low phosphorus stress condition. Significant differences among the introgression lines were observed for plant height, tiller number, biomass, grain yield per plant, days to 50% flowering and harvest index across the environments. Based on grain yield observed under optimum phosphorus and limited phosphorus (P stress condition), eight stress tolerance indices were calculated and found STI and GMP are the better indices to discriminate among tolerant and susceptible genotypes, and correlation studies also confirmed the significant association between STI and GMP. Cluster analysis based on stress tolerance indices revealed three different clusters distinguishing genotypes based on their stable performance on yield related traits. AMMI and GGE biplot analysis to identify the stable performance across environments revealed NSR60, NSR101, NSR105, NSR85 and NSR86 as high grain yielders, whereas NSR135, NSR5 and NSR88 as stable performers. WAASBY‐based stability analysis on multiple traits (MTSI) showed NSR135, NSR79 and NSR18 with lowest MTSI, indicating their high stability and high mean performance compared with parent KMR3. Further genotyping for low P tolerance gene (PSTOL1) and grain yield genes (Gn1a, SPIKE, TGW6, DEP1 and OsSPL14) using allele specific markers showed that the desirable alleles of SPIKE, Gn1a and TGW6 were derived from wild parent O. rufipogon. Low P tolerance allele PSTOL1 was absent in recurrent parent KMR3; however, the introgression lines harboured desirable alleles, which were derived from O. rufipogon. Further mapping studies will help to identify a significant potential QTLs/gene for low P tolerance from O. rufipogon. Wild introgression lines, NSR85, NSR124, NSR80, NSR54, NSR86 and NSR88, were found as the high yielding and nutrient stress tolerant genotypes, which can be used as potential donors in future breeding programmes for low P stress tolerance.

Insights into Adaption and Growth Evolution: Genome-Wide Copy Number Variation Analysis in Chinese Hainan Yellow Cattle Using Whole-Genome Re-Sequencing Data.

Copy number variation (CNV) serves as a crucial source of genomic variation and significantly aids in the mining of genomic information in cattle. This study aims to analyze re-sequencing data from Chinese Hainan yellow cattle, to uncover breed CNV information, and to elucidate the resources of population genetic variation. We conducted whole-genome sequencing on 30 Chinese Hainan yellow cattle, thus generating 814.50 Gb of raw data. CNVs were called using CNVnator software, and subsequent filtering with Plink and HandyCNV yielded 197,434 high-quality CNVs and 5852 CNV regions (CNVRs). Notably, the proportion of deleted sequences (81.98%) exceeded that of duplicated sequences (18.02%), with the lengths of CNVs predominantly ranging between 20 and 500 Kb This distribution demonstrated a decrease in CNVR count with increasing fragment length. Furthermore, an analysis of the population genetic structure using CNVR databases from Chinese, Indian, and European commercial cattle breeds revealed differences between Chinese Bos indicus and Indian Bos indicus. Significant differences were also observed between Hainan yellow cattle and European commercial breeds. We conducted gene annotation for both Hainan yellow cattle and European commercial cattle, as well as for Chinese Bos indicus and Indian Bos indicus, identifying 206 genes that are expressed in both Chinese and Indian Bos indicus. These findings may provide valuable references for future research on Bos indicus. Additionally, selection signatures analysis based on Hainan yellow cattle and three European commercial cattle breeds identified putative pathways related to heat tolerance, disease resistance, fat metabolism, environmental adaptation, candidate genes associated with reproduction and the development of sperm and oocytes (CABS1, DLD, FSHR, HSD17B2, KDM2A), environmental adaptation (CNGB3, FAM161A, DIAPH3, EYA4, AAK1, ERBB4, ERC2), oxidative stress anti-inflammatory response (COMMD1, OXR1), disease resistance (CNTN5, HRH4, NAALADL2), and meat quality (EHHADH, RHOD, GFPT1, SULT1B1). This study provides a comprehensive exploration of CNVs at the molecular level in Chinese Hainan yellow cattle, offering theoretical support for future breeding and selection programs aimed at enhancing qualities of this breed.

Studies on Path Coefficient Analysis and Correlation to Evaluate the Relationships between Yield and Its Components in Fenugreek (Trigonella foenum-graecum L.)

The present investigation was carried out for correlation and path coefficient analysis in Fenugreek (Trigonella foenum-graecum L.) The correlation of different traits with seed yield was examined both at phenotypic and genotypic levels and the study showed that genotypic correlation coefficient values were higher than the phenotypic values. This indicated that how much of phenotypic correlation coefficient are influenced by environment. The seed yield per plant was positive and significant with biological yield per plant, test weight and number of branches per plant at genotypic and phenotypic levels. The maximum direct positive effect on seed yield per plant was observed in biological yield per plant, harvest index, days to 50 per cent flowering, number of seed per pod, number of branches per plant and number of pods per plant. In the present investigation, genotypes viz., AFG-4 and RMT-303 were superior for seed yield per plant along with other traits like biological yield, test weight and number of pods per plant. These diverse genotypes can be used in future breeding programme of fenugreek.

Evaluation of Lemongrass (Cymbopogon flexuosus L.) Genotypes under Northern Dry Zone of Karnataka (Zone III)

Aim: To evaluate the lemongrass genotypes for growth, yield and quality contributing characters. Study Design: Fisher’s method of ANOVA by Panse and Sukhatme. Place and Duration of Study: Department of Plantation, Spices, Medicinal and Aromatic Crops, College of Horticulture, Bagalkot, Karnataka during rabi 2023-24. Methodology: Forty genotypes of lemongrass were assessed for growth, yield and quality parameters. Results: Among forty genotypes, Elite genotype recorded the maximum plant height and petiole length. Whereas, the highest plant spread, number of tillers, leaf length, leaf width and biomass yield per clump, per plot and hectare was found maximum in CKP25 and OD-83 for girth of the tiller at different growth stages. Conclusion: The genotypes superior for growth, yield and quality parameters will be considered for future breeding program.