Ecological Genetics and Genomics最新文献_第3页

Phenotypic and molecular assessments of genetic diversity in Lagenaria siceraria (bottle gourd) accessions from Southwest Nigeria 尼日利亚西南部丝瓜种质资源遗传多样性的表型和分子分析

Q3 Agricultural and Biological Sciences

Ecological Genetics and Genomics

Pub Date : 2026-03-01 Epub Date: 2026-02-13 DOI: 10.1016/j.egg.2026.100453

Olagunju Yemisi Omobonike , Olawuyi Odunayo Joseph

Lagenaria siceraria belongs to the Cucurbitaceae family and comprises vegetable crops. The application of the rbcL marker in L. siceraria studies is uncommon. Therefore, this study was conducted to characterize forty-three L. siceraria accessions using phenotypic and molecular (rbcL-based) approaches. Accessions were collected from four Southwest Nigerian states and evaluated in two years using a randomized complete block design. The phenotypic traits were evaluated using IBPGR/ECPGR cucurbit descriptors, while genetic variance and heritability estimates were determined using standard methods. Extraction of genomic DNA was performed using a modified CTAB protocol. The rbcL gene was amplified by H1f/Fofana primers and sequenced on an ABI 3130xl. A wide range of genetic diversity was observed through morphological assessment; the variations in percentage coefficients for fruit and seed traits were over 40%. The effects of the accessions were highly significant (p < 0.0001) on all the phenotypic traits. Heritability estimates were in the range of 31.9% (NFF-Node of First Female Flower) to 99% (NSPP-Number of Seeds Per Plant), and a high Genotypic Coefficient of Variation (118.06%) was also revealed for fruit weight. The rbcL gene revealed 238 segregating sites, moderate haplotype diversity (Hd = 0.518), and nucleotide diversity (π = 0.07247). The phylogenetic tree authenticated all accessions of L. siceraria with ≥98% sequence similarity. Procrustes correlation plot revealed a mild agreement between the molecular and the morphological dataset. Six outliers showed genotype-phenotype decoupling, pointing to the complex nature of inheritance of the traits and selection potential.

Lagenaria siceraria属于葫芦科，包括蔬菜作物。rbcL标记在镰刀菌研究中的应用并不多见。因此，本研究采用表型和分子（rbcl为基础）方法对43个镰刀菌材料进行了表征。从尼日利亚西南部的四个州收集资料，并在两年内采用随机完全区组设计进行评估。表型性状采用IBPGR/ECPGR描述子进行评价，遗传方差和遗传力采用标准方法进行估计。使用改良的CTAB协议提取基因组DNA。采用H1f/Fofana引物扩增rbcL基因，并在ABI 3130xl上测序。通过形态鉴定发现了广泛的遗传多样性；果实和种子性状百分率系数的变异在40%以上。各种质对各表型性状的影响均极显著（p <； 0.0001）。遗传力在31.9% （nff -第一雌花节数）~ 99% （nspp -单株种子数）之间，果实重的遗传变异系数也很高（118.06%）。rbcL基因有238个分离位点，具有中等的单倍型多样性（Hd = 0.518）和核苷酸多样性（π = 0.07247）。系统发育树鉴定所有菌株序列相似性≥98%。Procrustes相关图显示分子和形态数据集之间有轻微的一致性。6个异常值显示基因型-表型脱钩，表明性状遗传的复杂性和选择潜力。

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引用次数: 0

Exploration of genetic diversity and population structure in North Indian Aegle marmelos accessions using ISSR markers 利用ISSR标记对北印度安吉尔甜瓜遗传多样性和群体结构的研究

Q3 Agricultural and Biological Sciences

Ecological Genetics and Genomics

Pub Date : 2026-03-01 Epub Date: 2025-12-29 DOI: 10.1016/j.egg.2025.100438

Prince Minhas , Rajvinder Minhas , Atul Chamyal , Rakesh Kumar , Kanika Aggarwal , Rahul Kumar , Maneet Rana , Vikas Sharma

Aegle marmelos (L.) Correa, commonly known as Bael in North India, is an important underutilized fruit tree with immense medicinal, nutritional, and cultural significance across the Indian subcontinent. Despite its widespread distribution and traditional value, comprehensive genetic diversity studies are still limited, particularly across diverse agroclimatic regions. In the present study, 58 accessions of A. marmelos collected from Punjab, Haryana and Himachal Pradesh were analyzed using 12 polymorphic Inter-Simple Sequence Repeat (ISSR) markers to assess genetic diversity and population structure. A total of 56 polymorphic bands were generated by these 12 primers, with an average of 4.66 bands per primer. The size of amplified fragments ranged from 400 bp to 2000 bp. Polymorphism Information Content (PIC) and Marker Index (MI) values indicated high levels of genetic variability among the accessions. UPGMA-based cluster analysis grouped all accessions into three major clusters with subgroups. STRUCTURE analysis also revealed the presence of three distinct genetic populations with evidence of admixture. The results suggest a moderate to high degree of genetic diversity and heterozygosity, underscoring the potential of analyzed accessions for the selection of elite accessions for breeding and conservation purpose. The study demonstrates the efficiency of ISSR markers in distinguishing A. marmelos accessions and highlights the need for systematic conservation strategies and genetic enhancement programs in this plant. Specifically, samples with codes Pd, K7, N, H,H7, U4 and U11 can be selected on priority basis for various purposes. These findings can contribute to the improvement and sustainable utilization of this traditionally and pharmacologically important species.

安吉尔甜瓜（L.）Correa，在印度北部通常被称为Bael，是一种重要的未被充分利用的果树，在整个印度次大陆具有巨大的药用、营养和文化意义。尽管遗传多样性具有广泛的分布和传统价值，但对遗传多样性的综合研究仍然有限，特别是在不同的农业气候区域。利用12个多态性间简单序列重复（ISSR）标记对来自印度旁遮普、哈里亚纳邦和喜马偕尔邦的58份蜜瓜种质资源进行遗传多样性和群体结构分析。12条引物共产生56条多态性条带，平均每个引物产生4.66条多态性条带。扩增片段大小在400 ~ 2000 bp之间。多态性信息含量（PIC）和标记指数（MI）表明各材料间存在较高的遗传变异。基于upgma的聚类分析将所有接入分组为三个主要的类和子组。结构分析还揭示了三个不同的遗传群体的存在，并有混合的证据。结果表明，所分析的材料具有中等至高度的遗传多样性和杂合性，这表明所分析的材料具有选择优良材料进行育种和保护的潜力。本研究证明了ISSR标记在柑橘种质资源鉴别中的有效性，并强调了对柑橘种质资源进行系统保护和遗传增强的必要性。具体来说，根据不同的用途，可以优先选择代码为Pd、K7、N、H、H7、U4、U11的样品。这些发现有助于对这一传统和药理上重要的物种进行改良和可持续利用。

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引用次数: 0

Unveiling the genetic diversity and population structure in Dioscorea bulbifera L. accessions from the southernmost state Kerala, India 揭示来自印度最南部喀拉拉邦的黄薯蓣种质资源的遗传多样性和群体结构

Q3 Agricultural and Biological Sciences

Ecological Genetics and Genomics

Pub Date : 2026-03-01 Epub Date: 2026-02-19 DOI: 10.1016/j.egg.2026.100452

Bahuleyan Ambika Arun, E.A. Siril

Dioscorea bulbifera L., commonly known as the air potato, is considered one of the significant tuber crops valued globally as a staple food as well as medicine, particularly for skin diseases. The study aims to characterize the genetic diversity and population structure of D. bulbifera accessions from different agroecological zones of Kerala, India, by using inter simple sequence repeat (ISSR) markers. Out of 28 primers screened, 16 yield clear, reproducible, and scorable banding patterns. A total of 131 bands were produced within 33 accessions, and 89.91% of the amplicons were polymorphic. High efficiency and level of polymorphism were confirmed by Measures of expected heterozygosity, discriminating power, and polymorphism information content. Accordingly, Primer UBC 810 exhibited the highest discriminating power, imparting effective molecular level identification within the selected accessions. The diversity indices, such as Nei's gene diversity, Shannon information index, and Jaccard's similarity range, reveal the significant level of genetic variability within the species. The dendrogram based on the unweighted neighbour joining method with a bootstrapping value of 100 supports the diversity indices and distributes the entire accessions into three major clusters. However, the allocation of accession in the dendrogram was irrespective of their geographical location of collection. STRUCTURE analysis reveals the expected two subpopulations through Bayesian clustering and effectively distinguishes the landrace from wild accessions. These findings underscore the utility of ISSR markers to differentiate D. bulbifera accessions and to elucidate their complex genetic diversity.

黄薯蓣（Dioscorea bulbifera L.），俗称空气马铃薯，被认为是全球重要的块茎作物之一，作为主食和药物，特别是用于皮肤病。利用ISSR （intersimple sequence repeat）标记对印度喀拉拉邦不同农业生态区黄裂豆属植物的遗传多样性和群体结构进行了研究。在筛选的28个引物中，16个产生清晰，可重复和可评分的条带模式。33份材料共扩增出131个条带，多态性占89.91%。通过对期望杂合度、鉴别力和多态性信息含量的测量，证实了多态性的高效率和高水平。因此，引物UBC 810表现出最高的鉴别能力，可以在所选的材料中进行有效的分子水平鉴定。Nei’s基因多样性指数、Shannon信息指数和Jaccard相似范围等多样性指数反映了物种内部遗传变异性的显著水平。基于非加权邻居连接法的树形图支持多样性指数，并将整个接入分布到三个主要聚类中。然而，在树形图中，加入物的分配与它们的采集地理位置无关。结构分析通过贝叶斯聚类揭示了预期的两个亚居群，有效地区分了地方品种和野生品种。这些发现强调了ISSR标记在区分黄顶菊品种和阐明其复杂遗传多样性方面的实用性。

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引用次数: 0

Crop production under abiotic stresses: Management options and crop reactions 非生物胁迫下的作物生产：管理选择和作物反应

Q3 Agricultural and Biological Sciences

Ecological Genetics and Genomics

Pub Date : 2026-03-01 Epub Date: 2026-02-13 DOI: 10.1016/j.egg.2026.100454

Temesgen Begna, Hayilu Gichile, Temesgen Teressa, Werkissa Yali, Zawdu Asrat

Abiotic stressors associated with climate change: such as drought, heat, salinity, and nutrient deficiencies pose severe threats to global agriculture by impairing plant growth, development, and reproduction. These stresses are major contributors to yield losses at both regional and global scales, thereby undermining food and nutritional security. Developing stress-resilient crops is therefore a critical priority, achievable through advanced breeding strategies and the integration of emerging technologies. This review synthesizes current knowledge on crop production under abiotic stress conditions, emphasizing the intricate and coordinated defense mechanisms that plants employ. These responses involve morphological, physiological, and biochemical adjustments that collectively mitigate the adverse effects of environmental stressors and sustain productivity. Alongside genetic improvement, climate-smart agricultural practices represent essential strategies for building resilience, improving resource use efficiency, and ensuring the long-term sustainability of crop production systems. Effective management of abiotic stresses requires a comprehensive understanding of the underlying physiological, biochemical, and ecological processes. Recent advances in genomics, speed breeding, and multi-omics technologies have transformed crop improvement programs by enabling precise identification of stress-responsive genes and pathways. These approaches accelerate genetic gains and provide novel opportunities for developing high-yielding, climate-resilient varieties. In conclusion, addressing the challenges of abiotic stresses demands an integrated approach that combines breeding innovations, omics-driven insights, and sustainable agronomic practices. Such strategies are vital for overcoming food insecurity, enhancing crop resilience, and safeguarding the productivity of global agriculture in the face of accelerating climate change.

与气候变化相关的非生物应激源：如干旱、高温、盐度和营养缺乏，通过损害植物的生长、发育和繁殖，对全球农业构成严重威胁。这些压力是区域和全球范围内产量损失的主要原因，从而破坏了粮食和营养安全。因此，开发抗逆性作物是一个关键的优先事项，可以通过先进的育种策略和新兴技术的整合来实现。本文综述了目前关于非生物胁迫条件下作物生产的知识，强调了植物采用的复杂和协调的防御机制。这些反应包括形态、生理和生化调节，共同减轻环境压力的不利影响并维持生产力。除遗传改良外，气候智能型农业实践是建设抗灾能力、提高资源利用效率和确保作物生产系统长期可持续性的重要战略。非生物胁迫的有效管理需要对潜在的生理、生化和生态过程有全面的了解。基因组学、快速育种和多组学技术的最新进展，通过精确识别应激反应基因和途径，改变了作物改良计划。这些方法加速了遗传增益，并为开发高产、适应气候变化的品种提供了新的机会。总之，应对非生物胁迫的挑战需要一种综合的方法，将育种创新、组学驱动的见解和可持续的农艺实践结合起来。这些战略对于克服粮食不安全、增强作物抵御能力以及在气候变化加速的情况下保障全球农业生产力至关重要。

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引用次数: 0

Molecular characterization and antibiogram profiling of hypervirulent Klebsiella pneumoniae isolated from clinical-environmental interface 临床-环境界面分离的高致病性肺炎克雷伯菌的分子特征和抗生素谱分析

Q3 Agricultural and Biological Sciences

Ecological Genetics and Genomics

Pub Date : 2025-12-01 Epub Date: 2025-10-10 DOI: 10.1016/j.egg.2025.100413

Prisweta Bhattacharjee , Rajkumari Elizabeth , Sayani Roy , Anupam Das Talukdar , Manabendra Dutta Choudhury , Amitabha Bhattacharjee

This study investigates the prevalence, virulence gene profile, and antibiotic resistance of hypervirulent Klebsiella pneumoniae (hvKp) strains isolated from drainage water near healthcare facilities in Southern Assam. A total of 32 K. pneumoniae isolates were identified, with 19 carrying virulence genes out of which 13 isolates carrying multiple virulence genes, including those responsible for iron acquisition and siderophore biosynthesis. Antibiogram profiling revealed high resistance rates, particularly to norfloxacin (78.94 %), followed by ampicillin (73.68 %) and ciprofloxacin (68.42 %), while imipenem and meropenem retained higher effectiveness, despite some isolates showing resistance. These findings highlight the clinical-environmental reservoirs of multidrug-resistant, hypervirulent K. pneumoniae strains, posing significant challenges for infection control and treatment in healthcare settings.

本研究调查了从阿萨姆邦南部医疗设施附近的排水中分离出的高毒力肺炎克雷伯菌（hvKp）菌株的流行率、毒力基因谱和抗生素耐药性。共鉴定出32株肺炎克雷伯菌，其中19株携带毒力基因，其中13株携带多毒力基因，包括负责铁获取和铁载体生物合成的毒力基因。抗生素谱分析显示高耐药率，特别是对诺氟沙星（78.94%），其次是氨苄西林（73.68%）和环丙沙星（68.42%），而亚胺培南和美罗培南保持较高的有效性，尽管一些分离株表现出耐药性。这些发现突出了多药耐药、高毒力肺炎克雷伯菌菌株的临床环境储存库，对卫生保健机构的感染控制和治疗提出了重大挑战。

引用次数: 0

Evaluating genotype × environment interactions for selecting high-yielding stable rice varieties under water stagnant conditions 滞水条件下高产稳产水稻品种基因型与环境相互作用评价

Q3 Agricultural and Biological Sciences

Ecological Genetics and Genomics

Pub Date : 2025-12-01 Epub Date: 2025-08-26 DOI: 10.1016/j.egg.2025.100398

Md Asif Rahman , Zakaria Alam , Akm Sajjadul Islam , Md Monoar Hossain , Naznin Akter Munna , Mohammad Rafiqul Islam , Mohammad Kamruzzaman , SM Hisam Al Rabbi

Rice cultivation in the waterlogged regions of southwestern Bangladesh (SWB) faces significant challenges. This study evaluated 22 rice varieties across six hotspots to identify high-yielding and stable genotypes under stagnant water conditions. Using a randomized complete block design with three replications, the experiment revealed notable variations in yield attributes. The variety BR23 achieved the highest grain yield at 3.87 t/ha, followed by BR10 (3.72 t/ha), BRRI dhan76 (3.52 t/ha), BRRI dhan30 (3.51 t/ha), and BRRI dhan77 (3.30 t/ha). The plant height, number of panicles, culm diameter, and harvest index were recorded highest in the genotypes BRRI dhan77 (146 cm), BR23 (5.3 panicles), BR23 (10.6 mm), and BR23 (0.31), respectively. Grain yield showed positive correlations with harvest index (r = 0.62), panicle number (r = 0.54), culm diameter (r = 0.52), days to maturity (r = 0.49), plant height (r = 0.41), filled grains per panicle (r = 0.31), and thousand seed weight (r = 0.19). High heritability values were observed for days to maturity (0.98), culm diameter (0.94), and grain yield (0.61). Stability analyses, including WAAS, WAASB, WAASBY and GGE biplot analysis identified BR23, BRRI dhan30, and BR10 as the most stable and high-yielding varieties. BR23 demonstrated broad adaptability across Satkhira, Koyra, Shyamnagar, Assasuni, and Paikgacha, while BR10 showed adaptability in Assasuni and Paikgacha. The Multi-Trait Stability Index (MTSI) ranked BR23, BRRI dhan30, and BR10 as top performers, with grain yield showing the highest selection gain of 37.1 %. These findings recommend BR23, BRRI dhan30, and BR10 for large-scale cultivation in waterlogged SWB.

孟加拉国西南部水涝地区的水稻种植面临着重大挑战。本研究对6个热点地区的22个水稻品种进行了评估，以确定在死水条件下高产和稳定的基因型。采用3个重复的随机完全区组设计，试验结果显示产量性状存在显著差异。BR23产量最高，为3.87 t/ha，其次为BR10 （3.72 t/ha）、BRRI dhan76 （3.52 t/ha）、BRRI dhan30 （3.51 t/ha）和BRRI dhan77 （3.30 t/ha）。BRRI dhan77 （146 cm）、BR23 （5.3 mm）、BR23 （10.6 mm）和BR23（0.31）基因型的株高、穗数、茎粗和收获指数最高。籽粒产量与收获指数（r = 0.62）、穗数（r = 0.54）、茎粗（r = 0.52）、成熟期（r = 0.49）、株高（r = 0.41）、每穗实粒数（r = 0.31）、千粒重（r = 0.19）呈显著正相关。成熟期（0.98）、茎粗（0.94）和籽粒产量（0.61）的遗传率均较高。稳定性分析包括WAAS、WAASB、WAASBY和GGE双图分析，鉴定BR23、BRRI、dhan30和BR10是最稳定高产的品种。BR23在Satkhira、Koyra、Shyamnagar、Assasuni和Paikgacha表现出广泛的适应性，而BR10在Assasuni和Paikgacha表现出适应性。多性状稳定指数（MTSI）将BR23、BRRI dhan30和BR10评为表现最好的品种，籽粒产量的选择增益最高，达37.1%。这些发现推荐BR23、BRRI dhan30和BR10在涝渍SWB中进行大规模栽培。

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引用次数: 0

Morpho-agronomic diversity and population-environment interactions in Crocus sativus L. revealed by multivariate analysis 多变量分析揭示藏红花形态农艺多样性及种群与环境的相互作用

Q3 Agricultural and Biological Sciences

Ecological Genetics and Genomics

Pub Date : 2025-12-01 Epub Date: 2025-11-02 DOI: 10.1016/j.egg.2025.100422

Amir Hasan Taghiloofar, Gülsüm Boztaş, Emine Bayram

Saffron (Crocus sativus L.) is a high-value crop known for its unique aroma, coloring properties, and medicinal uses. This study assessed agro-morphological and yield-related traits of Turkish and Iranian saffron populations under Mediterranean climatic conditions over two years (2013–2014). Fourteen quantitative traits, including floral organ dimensions, biomass components, and flower number, were analysed to explore phenotypic variation and genotype × environment (G × E) interactions. Significant year and population effects were observed. The Iranian genotype showed greater stability and performance under warmer, drier conditions, whereas the Turkish population was more productive in cooler, wetter climates. Principal component analysis (PCA) revealed that style length, stigma length, fresh stigma weight, and flower number were key contributors to trait variation, explaining 56.4 % of the total variance. A trade-off between flower abundance and stigma biomass indicated differing resource allocation strategies. Climatic variables, particularly rainfall and temperature during flowering, had a substantial impact on trait expression. These results support population-specific selection strategies to optimize saffron cultivation under shifting climatic conditions.

藏红花（Crocus sativus L.）是一种高价值的作物，以其独特的香气，着色特性和药用用途而闻名。本研究历时两年（2013-2014），评估了地中海气候条件下土耳其和伊朗藏红花种群的农业形态和产量相关性状。分析了14个数量性状，包括花器官尺寸、生物量组成和花数，探讨了表型变异和基因型 × 环境（G × E）的相互作用。观察到显著的年效应和种群效应。伊朗基因型在温暖、干燥的条件下表现出更大的稳定性和性能，而土耳其种群在凉爽、潮湿的气候下更高产。主成分分析表明，花柱长度、柱头长度、鲜柱头重和花数是性状变异的主要影响因子，对总变异的贡献率为56.4% %。花丰度和柱头生物量之间的权衡反映了不同的资源分配策略。气候变量，特别是开花期间的降雨和温度，对性状表达有重大影响。这些结果支持在变化的气候条件下优化藏红花种植的种群特异性选择策略。

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引用次数: 0

Genomic insights into plant-microbe interactions 植物与微生物相互作用的基因组学见解

Q3 Agricultural and Biological Sciences

Ecological Genetics and Genomics

Pub Date : 2025-12-01 Epub Date: 2025-10-30 DOI: 10.1016/j.egg.2025.100421

Pushpa Gehlot, Jyoti Yadav, Poonam Meena, Priya Soni, Tripta Jain

Plant-microbe interactions underpin plant health, ecosystem functioning and agricultural sustainability, yet their complexity demands approaches that move beyond single-layer analysis. Over the past decade omics technologies-spanning genomics, transcriptomics, proteomics, metabolomics and meta-omics have revolutionized our capacity to characterize microbial communities and their functional roles. While prior reviews have largely focused on individual omics layers, this review uniquely emphasizes the integration of multi-omics datasets with systems biology, artificial intelligence and gene-editing innovations to provide a holistic framework for understanding plant-microbe dynamics. By synthesizing insights across symbiosis, pathogen interactions, signaling pathways and environmental microbiomes, we highlight how cross-disciplinary integration refines mechanistic models and accelerates translation from laboratory discovery to field-level application. In doing so, we underscore underexplored opportunities such as the role of epigenomics, spatial omics and in situ mobile sequencing, while critically addressing challenges of data integration, reproducibility and standardization. This review therefore contributes not only a synthesis of current knowledge but also a forward looking perspective that positions multi-omics integration, empowered by AI and systems biology, as a transformative paradigm for developing resilient crops, advancing sustainable agriculture and fostering environmental stewardship.

植物与微生物的相互作用是植物健康、生态系统功能和农业可持续性的基础，但它们的复杂性需要超越单层分析的方法。在过去的十年中，基因组学、转录组学、蛋白质组学、代谢组学和元组学等组学技术已经彻底改变了我们表征微生物群落及其功能角色的能力。虽然之前的综述主要集中在单个组学层面，但这篇综述独特地强调了多组学数据集与系统生物学、人工智能和基因编辑创新的整合，为理解植物-微生物动力学提供了一个整体框架。通过综合对共生、病原体相互作用、信号通路和环境微生物组的见解，我们强调跨学科整合如何完善机制模型，并加速从实验室发现到现场应用的转化。在此过程中，我们强调了未充分开发的机会，如表观基因组学、空间组学和原位移动测序的作用，同时关键地解决了数据整合、可重复性和标准化方面的挑战。因此，本综述不仅对现有知识进行了综合，而且还提出了前瞻性观点，将人工智能和系统生物学支持的多组学整合定位为开发抗灾作物、推进可持续农业和促进环境管理的变革范例。

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引用次数: 0

Assessment of early morphological traits and molecular characters of Psophocarpus tetragonolobus (L.) DC. (winged bean) using ISSR and SCoT markers 四爪蟾（Psophocarpus tetragonolobus）早期形态特征和分子特征的评价直流。使用ISSR和SCoT标记

Q3 Agricultural and Biological Sciences

Ecological Genetics and Genomics

Pub Date : 2025-12-01 Epub Date: 2025-10-21 DOI: 10.1016/j.egg.2025.100416

Odunayo Joseph Olawuyi , Hiqmoh Adekilekun Mutiu , Omolara Ifeoluwa Akinyoola , Opeyemi Muideen Mudasiru , Joshua Oluremi Odedeji , Abiodun Abeeb Azeez

Psophocarpus tetragonolobus (Winged bean) is an underutilized legume with significant economic potential but is constrained by a prolonged maturation period. This study aimed to identify early maturing accessions using qualitative and quantitative traits, and molecular markers (ISSR and SCoT) in a randomized complete block design. Vegetative and yield characters including leaf shape, corolla colour, pod formation, plant height, leaf length and stem diameter, varied significantly among accessions, with TPt-6 exhibiting the highest plant height (71.96 cm) and TPt-11 showing the largest stem diameter (1.9 cm). Accessions TPt-19, TPt-6 and TPt-125 exhibited early flowering at 41, 42, and 45 days after planting, respectively, while TPt-6 and TPt-11 showed early pod formation at 54 and 58 days, respectively. Among the three ISSR and SCoT markers tested, UBC-811 (ISSR) and SCoT-3 (SCoT) exhibited the highest polymorphic information content (69.75 %) and gene diversity (0.75), indicating their effectiveness in detecting genetic variation. The accessions were grouped into two major clusters A and B, with TPt-19 and TPt-9 forming a subclade within Cluster B which suggests genetic distinctiveness. These findings highlight TPt-6, TPt-11, TPt-19 and TPt-125 as promising candidates for breeding programs focused on improving early maturity in winged bean.

翼豆（Psophocarpus tetragonolobus）是一种未被充分利用的豆科植物，具有显著的经济潜力，但受长时间成熟期的限制。本研究旨在采用完全随机区组设计，利用定性和定量性状以及分子标记（ISSR和SCoT）鉴定早熟品种。叶片形状、花冠颜色、荚果形成、株高、叶长、茎粗等营养性状和产量性状在不同品种间差异显著，其中TPt-6株高最高（71.96 cm）， TPt-11茎粗最大（1.9 cm）。TPt-19、TPt-6和TPt-125分别在种植后第41、42和45天开花早，TPt-6和TPt-11分别在种植后第54和58天结荚早。在3个ISSR和SCoT标记中，UBC-811 （ISSR）和SCoT-3 （SCoT）表现出最高的多态性信息含量（69.75%）和基因多样性（0.75），表明其检测遗传变异的有效性。TPt-19和TPt-9在聚类B中形成一个亚枝，显示了遗传的独特性。这些发现强调了TPt-6、TPt-11、TPt-19和TPt-125是有前途的候选育种项目，重点是提高有翼豆的早熟性。

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引用次数: 0

DNA Barcoding as a tool for species authentication and conservation of Rudraksha (Elaeocarpus angustifolius Blume) DNA条形码技术在鲁拉卡沙（Elaeocarpus angustifolius Blume）物种鉴定与保护中的应用

Q3 Agricultural and Biological Sciences

Ecological Genetics and Genomics

Pub Date : 2025-12-01 Epub Date: 2025-08-26 DOI: 10.1016/j.egg.2025.100396

S. Leo Arockia Raj , Stalin Nithaniyal , D. Narasimhan , S. Dennis , P. Charles , Antoine Lebel , V. Kaviarasan , R. Ravindhran

DNA barcoding has emerged as a powerful molecular tool for cryptic species identification and biodiversity conservation. The study highlights the utility of DNA barcoding as a complementary tool for species authentication and conservation of a sacred tree Rudraksha (Elaeocarpus angustifolius Blume). Although the Rudraksha beads are recognized worldwide for their cultural, ecological, and economic value, their taxonomic identity is still uncertain due to look-alike congeners. Therefore, the current study validates the efficacy of chloroplast (rbcL, matK, and trnH-psbA) and nuclear (ITS2) DNA barcodes for accurate species identification. Genomic DNA was extracted from ten accessions collected from different localities in Northeastern India. All four DNA barcode regions were successfully PCR amplified and DNA sequenced using universal primers. The bidirectional sequencing recovered 607 bp, 800–825 bp, 448–458 bp, and 450–455 bp for rbcL, matK, trnH-psbA, and ITS2 markers, respectively. The DNA barcode sequences were validated by NCBI-BLAST homology analysis, phylogenetic tree, and ITS2 secondary structure prediction. The homology analysis showed the highest similarity with two distinct species E. angustifolius and E. rugosus. The results were comparable in phylogenetic tree and ITS2 secondary structure prediction. A total of forty DNA barcode sequences representing two Elaeocarpus species were assembled as reference DNA barcode library. The nuclear ITS2 marker exhibited the highest nucleotide variation and ranked the best among the four markers for species identification. Our findings emphasized the need for developing a comprehensive reference DNA barcode library for species-level authentication and supporting biodiversity research to conserve ecologically important species.

DNA条形码已成为一种强大的分子工具，用于隐种鉴定和生物多样性保护。该研究强调了DNA条形码作为一种物种鉴定和保护圣树Rudraksha （Elaeocarpus angustifolius Blume）的补充工具的实用性。虽然鲁德raksha珠珠因其文化、生态和经济价值而享誉全球，但由于其相似的同源物，其分类身份仍然不确定。因此，本研究验证了叶绿体（rbcL、matK和trnH-psbA）和细胞核（ITS2） DNA条形码在准确物种鉴定中的有效性。从印度东北部不同地区收集的10种植物中提取了基因组DNA。所有四个DNA条形码区域均成功扩增，并使用通用引物进行DNA测序。rbcL、matK、trnH-psbA和ITS2标记的双向测序结果分别为607 bp、800-825 bp、448-458 bp和450-455 bp。DNA条形码序列经NCBI-BLAST同源性分析、系统进化树和ITS2二级结构预测验证。同源性分析结果表明，两种不同的品种有较高的相似性。系统发育树和ITS2二级结构预测结果具有可比性。收集了代表两种树果属植物的40个DNA条形码序列，作为参考DNA条形码库。核ITS2标记的核苷酸变异最大，在4个物种鉴定标记中居首位。我们的研究结果强调了建立一个全面的参考DNA条形码库的必要性，用于物种级别的认证和支持生物多样性研究，以保护生态重要物种。

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