Ecological Genetics and Genomics最新文献

{"title":"Genome analysis of Acinetobacter venetianus JKSF06 strain providing insight into evolutionary features and adaptative potential in marine sediment environment","authors":"Md Imran Khan ,&nbsp;Abdur Rahman Al Akil","doi":"10.1016/j.egg.2025.100400","DOIUrl":"10.1016/j.egg.2025.100400","url":null,"abstract":"<div><div><em>Acinetobacter venetianus</em> is a gram-negative, aerobic, and non-motile bacterium commonly found in marine and oil-contaminated environments due to its ability to degrade hydrocarbons. The studied <em>Acinetobacter venetianus</em> JKSF06 strain was originally isolated from sediment collected in La Porte, Texas, near the southern terminus of the Houston Ship Channel, into the Gulf of Mexico. The genome of JKSF06 spans 3,462,857 bp and encodes 3232 protein-coding sequences. ResFinder (v4.6.0) identified a β-lactamase-encoding antimicrobial resistance gene, <em>blaOXA-266</em>, while RGI (v6.0.3) detected four antimicrobial resistance genes, including <em>adeF</em> (RND-type efflux pump) and <em>blaOXA-266</em>, both sharing &gt;90 % sequence similarity. Furthermore, a heavy metal resistance system, czcCBA system (Cobalt-Zinc-Cadmium) was identified in the JKSF06 strain, which may indicate its adaptability in sediment environments. Notably, it also showed 100 % similarity with the Baumannoferrin AB-producing NI-siderophore type biosynthetic gene cluster. Additionally, two intact bacteriophages from the Caudoviricetes class were identified in its genome, indicating possible horizontal gene transfer. Phylogenetic analysis demonstrated a close evolutionary relationship between <em>A. venetianus</em> JKSF06 and other sediment-derived isolates, suggesting a potential common ancestry and adaptation to sediment environments.</div></div>","PeriodicalId":37938,"journal":{"name":"Ecological Genetics and Genomics","volume":"37 ","pages":"Article 100400"},"PeriodicalIF":0.0,"publicationDate":"2025-08-30","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144926256","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Evaluating genotype × environment interactions for selecting high-yielding stable rice varieties under water stagnant conditions","authors":"Md Asif Rahman ,&nbsp;Zakaria Alam ,&nbsp;Akm Sajjadul Islam ,&nbsp;Md Monoar Hossain ,&nbsp;Naznin Akter Munna ,&nbsp;Mohammad Rafiqul Islam ,&nbsp;Mohammad Kamruzzaman ,&nbsp;SM Hisam Al Rabbi","doi":"10.1016/j.egg.2025.100398","DOIUrl":"10.1016/j.egg.2025.100398","url":null,"abstract":"<div><div>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.</div></div>","PeriodicalId":37938,"journal":{"name":"Ecological Genetics and Genomics","volume":"37 ","pages":"Article 100398"},"PeriodicalIF":0.0,"publicationDate":"2025-08-26","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144926255","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"DNA Barcoding as a tool for species authentication and conservation of Rudraksha (Elaeocarpus angustifolius Blume)","authors":"S. Leo Arockia Raj ,&nbsp;Stalin Nithaniyal ,&nbsp;D. Narasimhan ,&nbsp;S. Dennis ,&nbsp;P. Charles ,&nbsp;Antoine Lebel ,&nbsp;V. Kaviarasan ,&nbsp;R. Ravindhran","doi":"10.1016/j.egg.2025.100396","DOIUrl":"10.1016/j.egg.2025.100396","url":null,"abstract":"<div><div>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 (<em>Elaeocarpus angustifolius</em> 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 (<em>rbcL</em>, <em>matK</em>, and <em>trn</em>H-<em>psb</em>A) 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 <em>rbcL, matK</em>, <em>trnH</em>-<em>psbA</em>, 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 <em>E. angustifolius</em> and <em>E. rugosus.</em> The results were comparable in phylogenetic tree and ITS2 secondary structure prediction. A total of forty DNA barcode sequences representing two <em>Elaeocarpus</em> 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.</div></div>","PeriodicalId":37938,"journal":{"name":"Ecological Genetics and Genomics","volume":"37 ","pages":"Article 100396"},"PeriodicalIF":0.0,"publicationDate":"2025-08-26","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144918085","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Microbiome of different gut compartments of banana pseudostem weevil Odoiporus longicollis (Coleoptera: Curculionidae) offers an understanding of site-specific diversity and metabolism: Whole-metagenome shotgun sequencing approach","authors":"Sreeramulu Bhuvaragavan ,&nbsp;Kannan Sruthi ,&nbsp;Akshaya Panigrahi ,&nbsp;Sundaram Janarthanan","doi":"10.1016/j.egg.2025.100397","DOIUrl":"10.1016/j.egg.2025.100397","url":null,"abstract":"<div><div>The pseudostem weevil <em>Odoiporus longicollis</em>, a major pest of banana confers serious crop losses. The cellulose- and terpene-rich diet requires a high reliance on gut microbiome for nutrition. While Puranik et al. (2024) explored the whole gut bacteriome (16S) of this pest, spatial distribution of microbiome across gut sections remained uncharacterized. Here we present the region-specific microbiome of foregut, midgut and hindgut of <em>O. longicollis</em>, encompassing bacteria, fungi and other eukaryotes. Among bacteria, Firmicutes (Bacilli) predominated in the foregut while Proteobacteria (Gammaproteobacteria) dominated midgut and hindgut. Erysipelotrichia was notably higher in the hindgut. The Enterobacteriaceae (<em>Klebsiella</em>, <em>Enterobacter</em>) subjugated all sections with differential distribution of <em>Raoultella</em>, <em>Citrobacter</em> and <em>Escherichia</em>. Lactobacillaceae (<em>Leuconostoc</em>, <em>Lactiplantibacillus</em>) were prominent in foregut while Streptococcaceae (<em>Lactococcus</em>) dominated the mid- and hindgut. Notably, the primary endosymbiont <em>Candidatus</em> Nardonella was restricted to the foregut. Fungal phyla Ascomycota and Basidiomycota were abundant. Debaryomycetaceae (<em>Scheffersomyces</em>, <em>Millerozyma</em>, <em>Candida</em>) dominated the foregut and hindgut, whereas Saccharomycodaceae (<em>Hanseniaspora</em>, <em>Yarrowia</em>) characterized the midgut. Other eukaryotes i.e., Alveolata, Apicomplexa, Oomycota, Discoba, Amoebozoa, Chloroplast-Stramenopile (CS) clade, Euglenozoa, Heterolobosea and Perkinsozoa were distributed differentially. The hindgut emerged as the species-rich and taxonomically diverse region. Fungal species were rich in foregut and midgut, and diverse in hindgut and foregut. Gene profiling revealed distinct patterns in carbohydrate metabolism, terpene degradation and nitrogen cycle, uncovering dependent and independent modes of cellulolysis in <em>O. longicollis</em>. The findings improved the understanding of the spatial dynamics and functional potential of the <em>O. longicollis</em> gut microbiome, offering implications for microbiome-based pest control strategies.</div></div>","PeriodicalId":37938,"journal":{"name":"Ecological Genetics and Genomics","volume":"36 ","pages":"Article 100397"},"PeriodicalIF":0.0,"publicationDate":"2025-08-23","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144907143","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Missing mate pairs reported as poly-G reads can confound analyses of rare members of microbial assemblages","authors":"Amrit K. Dhillon ,&nbsp;Aspen Workman ,&nbsp;Larry A. Kuehn ,&nbsp;Bernadette Earley ,&nbsp;Sara Louise Cosby ,&nbsp;Amy J. Powell ,&nbsp;Tara G. McDaneld ,&nbsp;Gavin C. Conant","doi":"10.1016/j.egg.2025.100399","DOIUrl":"10.1016/j.egg.2025.100399","url":null,"abstract":"<div><div>Using sequence reads from shotgun metagenomic analyses in both cattle and sheep, we describe how failures in mate pairing on Illumina sequencing can interact with bioinformatics pipelines to give spurious patterns among rare components of a metagenomic sample. We identified several different shotgun metagenomic datasets from different animals and different laboratories where the two members of the read pair matched a viral database at very different frequencies. We traced this bias to a set of poly-G reads of high quality that resulted from failures in generating read pairs during library preparation. These results reinforce the need to remove poly-G-rich reads when quality filtering shotgun metagenomic data.</div></div>","PeriodicalId":37938,"journal":{"name":"Ecological Genetics and Genomics","volume":"37 ","pages":"Article 100399"},"PeriodicalIF":0.0,"publicationDate":"2025-08-22","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144920071","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Assessment of wheat genotypes performance grown in gypsum soil under two irrigation water sources","authors":"Waleed A.T. El-Fahdawi ,&nbsp;Nawfal A. Sabry ,&nbsp;Mohammed Hamdan Al-Issawi ,&nbsp;Husam Munef Obiad ,&nbsp;Jabbar Sh E. Al-Esawi","doi":"10.1016/j.egg.2025.100395","DOIUrl":"10.1016/j.egg.2025.100395","url":null,"abstract":"<div><div>Two factorial field experiment was carried out during the fall season of 2023 at the agricultural field of the Euphrates Basin Development Center, Anbar University. To investigate the suitability of five wheat genotypes selected for cultivation in arid and semi-arid regions (under the environmental conditions of the western region of Iraq) in gypsum soils. The first factor involved two water sources, namely Euphrates water and well water. The second factor included five wheat genotypes i.e., G-6, G-19, G-20, G-30, G-36. The considered genotypes were recently introduced to Iraq to be adopted for cultivation in arid and semi-arid areas. The treatments were randomly arranged in Randomized Complete Block Design (RCBD) with three replications. The results showed that the growth and production of wheat genotypes have negatively affected by well water. However, well water can serve as a viable alternative if the right wheat genotype is used. Among all genotypes, G-30 was prominent and showed considerable performance under the effect of both water sources (Euphrates water and well water).</div></div>","PeriodicalId":37938,"journal":{"name":"Ecological Genetics and Genomics","volume":"36 ","pages":"Article 100395"},"PeriodicalIF":0.0,"publicationDate":"2025-08-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144852442","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Complete genome sequences and comparative analysis of two nitrile biocatalysts Bacillus sp. WOD8 and Bacillus safensis WOIS2 isolated from solid waste leachates (SWL) at Olusosun and Oke-Afa Dumpsites, Lagos State, Nigeria","authors":"Adewale Kayode Ogunyemi ,&nbsp;Olanike Maria Buraimoh ,&nbsp;Wadzani Palnam Dauda ,&nbsp;Olufunmilayo Olukemi Akapo ,&nbsp;Bukola Caroline Ogunyemi ,&nbsp;Emmanuel Olukayode Olumuyiwa ,&nbsp;Simeon Kolawole Odetunde ,&nbsp;Olukemi Ajibola Tobun ,&nbsp;Titilola Aderonke Samuel ,&nbsp;Matthew Olusoji Ilori ,&nbsp;Olukayode Oladipo Amund","doi":"10.1016/j.egg.2025.100388","DOIUrl":"10.1016/j.egg.2025.100388","url":null,"abstract":"<div><div>Leachates from solid waste dumps represent a significant source of nitrile pollution. These leachates often consist of range of pollutants, including nitriles. Therefore, leachates act as hotspots for microorganisms that produce nitrilase, enzymes capable of degrading nitriles. We previously isolated two nitrile-metabolizing bacteria <em>Bacillus</em> sp. strain WOD8 and <em>Bacillus safensis</em> strain WOIS2, from solid waste leachates (SWL) at Olusosun and Oke-Afa dumpsites in Lagos State, Nigeria. These bacteria produce nitrilase, which acts as nitrile biocatalyst. Here, we report the whole genome sequences and comparative analysis of <em>Bacilllus</em> sp. WOD8 and <em>Bacillus safensis</em> WOIS2 with other <em>Bacillus</em> species. The whole genome sequences of two strains WOD8 and WOIS2, were de novo assembled from Illumina HiSeq 4000 paired-end sequence reads and annotated using the NCBI Prokaryotic Genome Annotation Pipeline. The genomes of strains WOD8 and WOIS2 produced 18,092,046 and 16,584,468 total reads, respectively, with genome coverages of 678 and 429X. The genomic sizes of strains WOD8 and WOIS2 were 5.2 × 10⁶ bp (5.2 Mb) and 3.7 × 10⁶ bp (3.7 Mb), respectively, with GC contents of 35.5 and 41.5 %. In addition, the strains had 5,543 and 3,875 total genes, as well as 5,266 and 3,753 protein coding sequences (CDSs). The genome shotgun project for two nitrile biocatalysts, strains WOD8 and WOIS2, has been deposited in GenBank with accession numbers JAYKZE000000000 and JAZAPO000000000. The study was conducted to address the nitrile pollution problem by providing whole genome sequencing analysis of two nitrile biocatalysts, <em>Bacillus</em> sp. WOD8 and <em>Bacillus safensis</em> WOIS2. Also, the study provides a better understanding of their bioremediation applications and their potential for bioprospecting to improve nitrile waste control and management in the near future. The findings align with Sustainable Development Goals, emphasizing a clean environment, human safety, and sustainable practices.</div></div>","PeriodicalId":37938,"journal":{"name":"Ecological Genetics and Genomics","volume":"37 ","pages":"Article 100388"},"PeriodicalIF":0.0,"publicationDate":"2025-08-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145158343","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Isolation and characterization of antimicrobial and antioxidant-producing culturable bacteria from Sof Umer Cave, Ethiopia","authors":"Abu Feyisa Meka ,&nbsp;Ebisa Chaluma Abdeta ,&nbsp;Gessesse Kebede Bekele ,&nbsp;Musin Kelel Abas ,&nbsp;Mesfin Tafesse Gemeda","doi":"10.1016/j.egg.2025.100393","DOIUrl":"10.1016/j.egg.2025.100393","url":null,"abstract":"<div><div>Sof Umer Cave represents a unique and understudied ecosystem that harbors bacteria of significant industrial relevance. Despite its potential, the culturable bacteria from this cave with antimicrobial and antioxidant properties remain unexplored. This study aimed to isolate and characterize such bacteria using a several types of culture media. A total of 40 isolates were selected based on morphological distinctiveness from rock, sediment, and soil samples, with respective distribution rates of 52.36 %, 32.62 %, and 15.02 %. These isolates exhibited diverse morphological features, including differences in colony appearance and pigment production. Primary screening revealed that 45 % of the isolates were showed antimicrobial activity against reference pathogens. Among these, four isolates, AsucR1, AsucR2, AsucR5, and AsucR9, exhibited particularly strong antimicrobial activity. Antioxidant activity, assessed via the 2,2-diphenyl-1-picrylhydrazyl (DPPH) assay, revealed varying degrees of free radical scavenging potential, as indicated by their half maximal inhibitory concentration (IC₅₀) values. Molecular identification using 16S-rRNA partial gene sequencing confirmed that the four potent isolates were closely related to Stenotrophomonas maltophilia, Chryseobacterium shigense, and Cupriavidus alkaliphilus, all of which are known producers of bioactive compounds. These findings highlight the Sof Umer Cave untapped potential for novel drug discovery and underscore the need for further investigation into its microbial diversity.</div></div>","PeriodicalId":37938,"journal":{"name":"Ecological Genetics and Genomics","volume":"36 ","pages":"Article 100393"},"PeriodicalIF":0.0,"publicationDate":"2025-08-05","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144781319","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Genetic variability among fine flavor cocoa hybrids for precocity and tolerance to cocoa swollen shoot virus disease","authors":"Abu Mustapha Dadzie,&nbsp;Ebenezer Obeng-Bio,&nbsp;Kwabena Asare Bediako,&nbsp;Maame Adjoa Segbefia,&nbsp;Atta Ofori,&nbsp;Frank Owusu-Ansah,&nbsp;Owusu Domfeh","doi":"10.1016/j.egg.2025.100392","DOIUrl":"10.1016/j.egg.2025.100392","url":null,"abstract":"<div><div>Cocoa (<em>Theobroma cacao</em> L.) contributes significantly to gross domestic product (GDP) and livelihood of over 700,000 people in Ghana. The objectives of this study were to determine (1) precocity, vigor and breeding value of five fine flavor clones across two contrasting agro-ecologies, (2) gene action modulating seven agronomic traits including cocoa swollen shoot disease (CSSD) tolerance. Thirty F₁ families were generated by crossing six superior females with five fine flavor clones in a 6 × 5 North Carolina design II (NCII). Two sets of experiments were conducted; field evaluation of 30 hybrids with two checks across Tafo and Afosu while the second experiment involved a gauze house screening of same set of hybrids for CSSD tolerance. Results indicated significant (<em>P &lt; 0.05</em>) variability among the hybrids for the studied traits attributable to location and genotype. Most precocious clone with significant contribution to pod number was SGU50, while most precocious hybrids included CRG9006 × SGU50 and GU144C × SGU50. Clone GU144C had significant and positive general combining ability effect for vigor. Best surviving hybrids across locations included CRG9006 × ICS1, CRG9006 × SGU50, MAN15-2 × PLAYA-ALTA2 and MAN15-2 × SGU50. Field survival of hybrids depended on location and hybrid type.</div><div>Hybrids were sensitive to the New Juabeng strain of the cacao swollen shoot Togo B virus (CSSTBV) species. Severity of (CSSD) symptom expression was highly variable. Five hybrids, (CRG9006 × CC11, MAN15-2 × CC11, CRG9006 × PLAYA-ALTA2, PA7 × ICS1, PA150 × VENC4-4) were tolerant to CSSD. Most studied traits were conditioned by additive and non-additive gene actions, therefore, both recurrent and reciprocal recurrent selection approaches would be effective breeding strategies for improvement.</div></div>","PeriodicalId":37938,"journal":{"name":"Ecological Genetics and Genomics","volume":"36 ","pages":"Article 100392"},"PeriodicalIF":0.0,"publicationDate":"2025-08-04","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144770917","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"GGE-biplot investigation of climate-smart Senna (Cassia angustifolia Vahl.) genotypes' agronomic performance, biomass, and yield stability across years/environments","authors":"Ashish Kumar ,&nbsp;R.K. Lal ,&nbsp;Ramesh Kumar Srivastava ,&nbsp;S. Venugopal ,&nbsp;A.C. Jnanesha ,&nbsp;A. Niranjana Kumar ,&nbsp;Anil Kumar Gupta","doi":"10.1016/j.egg.2025.100390","DOIUrl":"10.1016/j.egg.2025.100390","url":null,"abstract":"<div><div>Senna is a popular medicinal herb used in almost all healthcare systems as a laxative. The primary issue this research addresses is the significant yield variability in <em>Senna</em> (<em>Cassia angustifolia</em>) across different environments, which hinders the identification and adoption of genotypes with consistent performance. This instability arises from strong genotype × environment interactions, making it difficult for breeders to select robust, high-yielding lines suitable for diverse agro-ecological zones. To overcome this challenge, our study employed AMMI (Additive Main Effects and Multiplicative Interaction) and GGE biplot analyses across multi-environment trials to assess yield performance, adaptability, and stability of various genotypes. These advanced statistical tools allowed us to separate main effects from interactions and visually interpret genotype responses across locations. The biplot depicts the which-won-where trend in various situations, illustrating the adaptability of the lines. PC1 and PC2's x and y axes explained 80.30 % and 9.3 % of the total variation (89.60 %), and 61.0 % and 21.30 % (82.30 %). The six environments were categorized, and then appropriate genotypes were chosen for each. Our findings identified genotypes SEN-1, 10, and 12 as the most stable and high-yielding across the tested environments. These genotypes demonstrated minimal interaction effects and superior adaptability, indicating their potential for widespread cultivation and inclusion in future breeding programs to improve <em>Senna</em> production. Therefore, this research not only fills a critical gap in the stability analysis of <em>Senna</em> but also provides concrete recommendations for genotype deployment in varied Indian agro-climates for large-scale production.</div></div>","PeriodicalId":37938,"journal":{"name":"Ecological Genetics and Genomics","volume":"36 ","pages":"Article 100390"},"PeriodicalIF":0.0,"publicationDate":"2025-07-25","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144722218","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}