BMC genomic data最新文献

{"title":"Complete genome sequence of Lacticaseibacillus rhamnosus B34-0-2 isolated from Panax ginseng in South Korea.","authors":"Sieun Kim, Ye-Rim Choi, Eun Bae Kim, Bokyung Lee","doi":"10.1186/s12863-026-01458-y","DOIUrl":"10.1186/s12863-026-01458-y","url":null,"abstract":"<p><strong>Objectives: </strong>Lacticaseibacillus rhamnosus is a widely studied probiotic species with notable functional diversity among strains. To expand the genomic resources available for this species and to support future comparative and probiotic-related studies, we sequenced and analyzed the complete genome of L. rhamnosus B34-0-2, a strain isolated from Panax ginseng, with a focus on its genomic features potentially associated with probiotic-related traits.</p><p><strong>Data description: </strong>Genomic DNA was extracted and sequenced using a combination of PacBio long-read and Illumina short-read platforms. The assembled genome comprised 2,810 predicted coding sequences (CDSs), 59 tRNA genes, and 15 rRNA genes. Functional classification assigned 2,761 CDSs (98.25%) to Clusters of Orthologous Groups (COG) categories. Screening for bacteriocin-related genes identified three genomic regions with partial similarity; however, none satisfied the predefined criteria for confident bacteriocin annotation. No antibiotic resistance genes meeting the predefined identity and coverage thresholds were detected using the CARD database. Functional annotation revealed 37 reductase-related and 3 oxidase-related genes. Phylogenetic analysis based on the 16 S rRNA gene sequence indicated that the strain clusters with L. rhamnosus strain NGRI04. These genome data provide a genomic resource for future studies on functional characterization and probiotic-related properties.</p>","PeriodicalId":72427,"journal":{"name":"BMC genomic data","volume":" ","pages":""},"PeriodicalIF":2.5,"publicationDate":"2026-07-14","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC13651205/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"148450863","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Prediction of the secretome of Microbotryum intermedium, as well as candidate fungal effectors.","authors":"Roxanne K Hayes, Michael H Perlin","doi":"10.1186/s12863-026-01469-9","DOIUrl":"10.1186/s12863-026-01469-9","url":null,"abstract":"<p><strong>Introduction: </strong>Secreted proteins are known to be an important virulence factor in the successful invasion and colonization of the host by fungi, especially for biotrophic parasites/pathogens of plants. To predict protein secretion, a genome must be evaluated by software that interrogates the genome for conserved sequences characteristic of known secreted proteins.</p><p><strong>Objectives: </strong>This work sought to identify putative secreted proteins of Microbotryum intermedium, a smut fungus found on plants of the Scabiosa family. To accomplish this, we used a pipeline of computational tools to serve as an efficient means of identifying potential targets as fungal effectors that can later be evaluated experimentally. So, this initial identification is ideally the first step in a larger investigation of the role of protein secretion in the development and progression of disease.</p><p><strong>Description: </strong>A pipeline of computational tools was used to stringently predict secreted proteins for Microbotryum intermedium, The pipeline was used to predict the canonical secretome of this fungus. The annotated M. intermedium genome ( mycocosm.jgi.doe.gov/Micin1/Micin1.home.html ) has 8,148 predicted genes, of which, only 296 were classified as putative secreted proteins using the stringent pipeline for canonical secretion prediction. These data inform future functional analyses that test candidates for their roles in pathogenicity.</p>","PeriodicalId":72427,"journal":{"name":"BMC genomic data","volume":" ","pages":""},"PeriodicalIF":2.5,"publicationDate":"2026-07-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC13647534/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"148439135","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Genomic characterization of Mycoplasma bovis, Mannheimia haemolytica, and bovine viral diarrhea virus 1 from a bovine respiratory disease complex case.","authors":"Daniel W Nielsen, David J Holthausen, Anna K Goldkamp, Darrell O Bayles, Beate M Crossley, Harish Menghwar, Eduardo Casas, Rohana P Dassanayake","doi":"10.1186/s12863-026-01456-0","DOIUrl":"10.1186/s12863-026-01456-0","url":null,"abstract":"<p><strong>Background: </strong>Bovine respiratory disease (BRD) complex is a result of the interactions among pathogens, environmental factors, host factors, and management practices. Bacterial pathogens that contribute to BRD include Mycoplasma (Mycoplasmopsis) bovis, Mannheimia haemolytica, Pasteurella multocida, and Histophilus somni. Viral agents that contribute to BRD include bovine herpesvirus 1, bovine viral diarrhea virus (BVDV), bovine respiratory syncytial virus, parainfluenza-3 virus, bovine coronavirus, and influenza D virus.</p><p><strong>Results: </strong>A case of BRD was submitted to the California Animal Health and Food Safety Laboratory for diagnostic evaluation. Bacterial and viral pathogens were isolated from a pneumonic lung sample including M. bovis, M. haemolytica, and BVDV. The DNAs/RNA of the pathogens were extracted, sequenced, analyzed, and compared to publicly available sequencing data. The genome of M. bovis was identified as a unique sequence type (ST299) with two novel alleles (gltX 28 and gpsA 32) and contained unique variable surface lipoproteins. However, the M. bovis genome also phylogenetically clustered with the M. bovis type strain PG45. The genome of M. haemolytica was similar to other publicly available M. haemolytica genomes, as it was assigned to sequence type 1 (ST1) and serotype 1. Finally, the genome of the isolated BVDV strain showed high similarity to the Singer (BVDV-1a) vaccine strain.</p><p><strong>Conclusion: </strong>As BRD is a complex, case studies in which the pathogens co-occur in the lung are important to report. Here, we report the complete genomes of three pathogens isolated from a single pneumonic lung sample. Notably, the M. bovis genome represents a unique sequence type. Future work should investigate the influence of the nine amino acid changes between the UCD-16 BVDV isolate and the Singer strain on disease pathogenesis.</p>","PeriodicalId":72427,"journal":{"name":"BMC genomic data","volume":" ","pages":""},"PeriodicalIF":2.5,"publicationDate":"2026-07-11","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC13644054/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"148426869","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Whole-genome sequences of Enterobacter cloacae H5 and Enterobacter bugandensis H6 isolated from patients in Khartoum State, Sudan.","authors":"Hiba A A Mahgoub, Mogahid M Elhassan, Hind H Ahmed, Hisham N Altyab, Mohamed E Hamid","doi":"10.1186/s12863-026-01471-1","DOIUrl":"10.1186/s12863-026-01471-1","url":null,"abstract":"<p><strong>Objective: </strong>Enterobacter species are important nosocomial pathogens, mainly due to multidrug resistance (MDR). This study reports the whole-genome sequences of Enterobacter cloacae H5 and Enterobacter bugandensis H6.</p><p><strong>Data description: </strong>Digital DNA-DNA hybridization (dDDH) confirmed species identity: H5 (91.8% with E. cloacae ATCC 13047) and H6 (89.3% with E. bugandensis EB-247). H5 has 46 contigs, 4,867,245 bp, GC 54.97%; H6 has 27 contigs, 4,616,569 bp, GC 56.05%. Phylogenetic analysis grouped H5 within E. cloacae and H6 within E. bugandensis. Both genomes harbor multiple antimicrobial resistance (AMR) genes. H5 includes β-lactamase CMH-16, FosA2, efflux pumps (oqxA, emrB), and regulators (ramA, baeR, baeS). H6 includes β-lactamase ACT-146, FosA2, efflux pumps (oqxA, emrB, msbA), regulators (baeR, baeS), and target modification gene ArnT. These genomes highlight the clinical significance of these strains and provide essential resources for understanding the genomic basis of antimicrobial resistance in Sudanese Enterobacter isolates.</p>","PeriodicalId":72427,"journal":{"name":"BMC genomic data","volume":" ","pages":""},"PeriodicalIF":2.5,"publicationDate":"2026-07-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC13640266/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"148426943","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Complete genome sequence of Leuconostoc lactis B34-1-7-1 isolated from Panax ginseng in South Korea.","authors":"Hyeonjun Lee, Ye-Rim Choi, Eun Bae Kim, Bokyung Lee","doi":"10.1186/s12863-026-01464-0","DOIUrl":"10.1186/s12863-026-01464-0","url":null,"abstract":"<p><strong>Objectives: </strong>Leuconostoc lactis is a heterofermentative lactic acid bacterium widely used as a starter culture in fermented foods. The L. lactis B34-1-7-1 strain, isolated from Panax ginseng sprouts cultivated under white LED light, has demonstrated promising probiotic potential, including antioxidant, anti-inflammatory, and anti-cancer activities, in previous studies. The genome of L. lactis B34-1-7-1 was sequenced and analyzed to evaluate its probiotic potential and safety for industrial applications, focusing on its genomic features and functional characteristics.</p><p><strong>Data description: </strong>The genome of L. lactis B34-1-7-1 was sequenced using a hybrid Illumina-PacBio approach. The complete genome is composed of a circular chromosome (1,648,351 bp) and a plasmid (12,481 bp), with an overall guanine-cytosine (GC) content of 43.6%. The genome encodes 1,661 coding sequences (CDSs), 68 transfer RNAs, and 12 ribosomal RNAs. Functional classification assigned 99.15% (1,647 genes) of the CDSs to Clusters of Orthologous Groups (COGs). Genome-based screening identified no known antibiotic resistance genes or virulence factors, supporting the safety of this strain. In addition, 23 genes associated with reductase and oxidase activities were identified, providing a genetic basis for its observed antioxidant potential. These results provide a foundational genomic resource supporting the application of L. lactis B34-1-7-1 in the functional food and probiotic industries.</p>","PeriodicalId":72427,"journal":{"name":"BMC genomic data","volume":" ","pages":""},"PeriodicalIF":2.5,"publicationDate":"2026-07-09","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC13393797/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"148426872","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Consensus-based detection of aetiologic copy number variants for syndromic orofacial clefts utilising whole exome sequencing of case parent trios.","authors":"Samuel Kanor Quaynor, Gideon Okyere Mensah, Tamara Busch, Bruce Tsri, Solomon Obiri-Yeboah, Daniel Kwesi Sabbah, Pius Agbenorku, Peter Donkor, Azeez Butali, Lord Jephthah Joojo Gowans","doi":"10.1186/s12863-026-01466-y","DOIUrl":"10.1186/s12863-026-01466-y","url":null,"abstract":"<p><strong>Background: </strong>Orofacial clefts (OFCs) are the most common craniofacial congenital anomalies, with complex aetiology involving both genetic and environmental factors. Most genetic studies on the condition have focused on the contribution of single nucleotide variants (SNVs) and small insertions and deletions (indels). However, the contribution of copy number variants (CNVs), especially in African populations, remains underexplored despite their known contribution to congenital anomalies. This study aimed to identify high-confidence CNVs potentially contributing to the aetiology of syndromic OFCs in Ghanaian case-parent trios using whole exome sequencing (WES) datasets.</p><p><strong>Methods: </strong>WES data from Ghanaian case-parent trios were processed through a comprehensive five-phase pipeline. Following stringent quality control and preprocessing, CNVs were called using four independent tools, namely, cn.MOPS, CODEX, ExomeDepth, and GATK-gCNV. The called CNVs were merged through a consensus-based approach using BEDtools, requiring support from at least two tools to classify them as true CNVs. AnnotSV was used to annotate and classify CNVs, while VarElect was employed to prioritise CNVs based on clinical phenotypes. High-confidence CNVs were mapped to patient phenotypes and further interrogated for pathogenic potential using databases such as DECIPHER, ClinVar, Mouse Genome Informatics (MGI), and the Alliance of Genome Resources. Gene expression patterns utilized MGI, Zebrahub and CELLxGENE Discover. Finally, pathway enrichment and interaction analyses were performed using g:Profiler, the STRING database, and Cytoscape.</p><p><strong>Results: </strong>Several de novo and inherited candidate CNVs were identified, including deletions and duplications involving key genes such as SHH, WBP11, and ADAMTS2, all of which are critically involved in craniofacial morphogenesis. In addition to known OFC-associated genes, the analysis identified novel candidate CNV regions encompassing genes not previously linked to syndromic OFCs in humans, including HYDIN, FLI1, ETS1, RSPH10B2, and CCZ1B. These were prioritised based on their expression patterns in developmental models, suggesting potential functional relevance to OFC pathogenesis. Pathway enrichment analysis further identified significant biological processes associated with craniofacial, neurodevelopmental, and musculoskeletal development.</p><p><strong>Conclusion: </strong>This study highlights the value of CNV analysis in studies on the genetic aetiology of OFCs and supports broader inclusion of African genomic data to identify population-specific aetiologic variants, thereby enhancing understanding of pathophysiology and clinical care.</p>","PeriodicalId":72427,"journal":{"name":"BMC genomic data","volume":" ","pages":""},"PeriodicalIF":2.5,"publicationDate":"2026-07-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC13637124/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"148414093","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Single nuclear RNA sequencing shows altered microglial and astrocytic functions in post-mortem Parkinson's disease tissue.","authors":"Indra Roy, Michael Fiorini, Rhalena A Thomas, Georgina Jimenez Ambriz, Sali Farhan, Valerio E C Piscopo, Thomas M Durcan","doi":"10.1186/s12863-026-01462-2","DOIUrl":"10.1186/s12863-026-01462-2","url":null,"abstract":"<p><strong>Background: </strong>Parkinson's disease (PD) is a neurodegenerative disease marked by a progressive loss of dopaminergic neurons in the substantia nigra pars compacta (SNpc) and formation of misfolded protein aggregates. A growing body of research has implicated glial cell dysfunction in PD etiology, including the concentration of activated glial cells around protein aggregates in post-mortem tissue. A disruption in the balance of pro- and anti-inflammatory immune response functions of microglia and astrocytes is believed to contribute towards neuronal degeneration as the disease progresses. However, the molecular mechanisms remain unclear. To shed light on the role of microglia and astrocytes in PD, this study analyzes three public single nuclear RNA sequencing datasets of the SNpc from patient and control post-mortem brains to identify altered molecular pathways in PD.</p><p><strong>Results: </strong>Both astrocytes and microglia show significant upregulation of heat shock binding and misfolded protein response pathways, likely reflecting a response to accumulating protein aggregates. Additionally, both cell types show decreased expression of genes associated with receptor functions; for microglia this included cytokine receptor genes such as IL21R, IL4R, and IFI44L. Genes associated with resting state microglia and non-inflammatory reactive state microglia were downregulated in PD microglia, including P2RY13, RSAD2, CSF2RA, CSF3R, and CX3CR1. Concurrently, astrocytes and microglia both show decreased expression of genes associated with neurotransmitter receptor functions that include glutamate and other ion channel receptors, suggesting a loss of neuron-glia communication in later disease stages.</p><p><strong>Conclusions: </strong>Taken together, our findings imply that astrocytes and microglia respond to protein misfolding pathology in PD by upregulating chaperone protein folding functions. Additionally, the profile of upregulated functions implies that both cell types are under increased energetic demand. The downregulation of neurotransmitter and channel receptor functions in both cell types indicates that neuron-glia communication and other supportive functions may be lost in favour of autophagic, protein-clearance mechanisms in PD microglia and astrocytes.</p>","PeriodicalId":72427,"journal":{"name":"BMC genomic data","volume":" ","pages":""},"PeriodicalIF":2.5,"publicationDate":"2026-07-04","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC13625337/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"148388449","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Complete genome sequence of a Methylomonas sp. nov. 2F7 isolated from rice paddy soil in South Korea.","authors":"Ye Jin Gwak, Sang Eun Jeong, Si Chul Kim, Kee-Beom Kim, Hyo Jung Lee","doi":"10.1186/s12863-026-01463-1","DOIUrl":"10.1186/s12863-026-01463-1","url":null,"abstract":"<p><strong>Objective: </strong>This Data Note reports the complete genome sequence and associated functional-genomic data of Methylomonas sp. strain 2F7, a methane-oxidizing bacterium isolated from rice paddy soil in South Korea. These data were generated to support comparative genomic analyses of methanotrophic bacteria and to document the genome-based taxonomic position and C1 metabolism gene repertoire of strain 2F7.</p><p><strong>Data description: </strong>The dataset includes Oxford Nanopore Technologies MinION raw reads, a two-replicon genome assembly, annotation summaries, functional classifications, a phylogenetic analysis, average nucleotide identity (ANI) and digital DNA-DNA hybridization (dDDH) comparisons, and a curated C1 metabolism gene table. The genome consists of a 4,979,984-bp chromosome and a 23,603-bp plasmid, with an overall G+C content of 51.4%. Annotation identified 4,520 genes, including 4,429 coding sequences (CDSs), nine rRNA genes, 46 tRNA genes, and four ncRNAs. The 16S rRNA gene sequence showed the highest similarity to Methylomonas fluvii EbBᵀ, whereas ANI/dDDH analysis identified Methylomonas rosea WSC-7ᵀ as the closest related type strain by genome-distance criteria, with ANI/dDDH values of 89.6% and 38.0%, respectively. Additional ANI/dDDH comparisons with M. fluvii EbBᵀ and M. defluvii OY6ᵀ yielded values of 89.3%/37.4% and 89.4%/36.9%, respectively. These genome-based values fall below accepted species-boundary thresholds and support placement of strain 2F7 as a putative novel species within the genus Methylomonas. The curated gene table documents pMMO-like and sMMO gene clusters and genes involved in methanol oxidation, formaldehyde oxidation, and ribulose monophosphate (RuMP)-linked C1 assimilation.</p>","PeriodicalId":72427,"journal":{"name":"BMC genomic data","volume":" ","pages":""},"PeriodicalIF":2.5,"publicationDate":"2026-07-03","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC13617913/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"148383295","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Complete genome sequence of Litorivicinus marinus strain IMCC2782^T isolated from coastal seawater.","authors":"Meora Rajeev, Yeonjung Lim, Ilnam Kang, Jang-Cheon Cho","doi":"10.1186/s12863-026-01461-3","DOIUrl":"10.1186/s12863-026-01461-3","url":null,"abstract":"<p><strong>Objectives: </strong>Members of the genus Litorivicinus are marine heterotrophic bacteria with limited genomic representation, constraining our understanding of their taxonomic diversity, metabolic capabilities, and ecological roles. The genus currently comprises only two validly published species, with genomic data available exclusively for the type species, Litorivicinus lipolyticus. Here, we report the complete genome sequence of Litorivicinus marinus strain IMCC2782ᵀ, isolated from surface seawater of the Yellow Sea, Republic of Korea, to provide insights into its genomic features and metabolic potential.</p><p><strong>Data description: </strong>The genome of strain IMCC2782ᵀ was sequenced using a hybrid approach combining short-read (Illumina) and long-read (PacBio) technologies. The assembly yielded a single circular chromosome of 2,204,001 bp with a G + C content of 56.07%. Genome annotation identified 2,196 protein-coding sequences, six rRNA genes, 41 tRNA genes, and one tmRNA gene. Functional annotation indicated complete central carbon metabolic pathways, including the Embden-Meyerhof-Parnas pathway, tricarboxylic acid cycle and oxidative phosphorylation, consistent with an aerobic chemoorganoheterotrophic lifestyle. The presence of a complete soxXYZABCD gene cluster suggests the potential for thiosulfate oxidation, whereas no pathways for dissimilatory nitrogen metabolism were identified. This genome expands the limited genomic resources available for the genus Litorivicinus and provides a foundation for future ecological and functional investigations.</p>","PeriodicalId":72427,"journal":{"name":"BMC genomic data","volume":" ","pages":""},"PeriodicalIF":2.5,"publicationDate":"2026-07-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC13452091/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"148371072","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Complete genome sequence of Streptomyces californicus ADR1, an anti-infective, anti-biofilm and anti-oxidant producing endophyte isolated from the medicinal plant Datura metel.","authors":"Khushboo Yadav, Sarika Phogat, Varsha Verma, Ashok K Dubey","doi":"10.1186/s12863-026-01459-x","DOIUrl":"10.1186/s12863-026-01459-x","url":null,"abstract":"<p><strong>Objective: </strong>Streptomyces californicus strain ADR1 is an endophytic actinobacterium isolated from Datura metel that produces secondary metabolites with potent antibacterial and anti-biofilm activities against WHO-listed high-priority Gram-positive pathogens. While anti-bacterial and antioxidant potential of the strain ADR1 has been extensively characterized, its complete genome sequence remains to be investigated for further insights into its biosynthetic potential. This study presents the complete genome sequence analysis of the strain ADR1 to provide a robust genomic foundation for understanding its metabolic versatility and biosynthesis of compounds with therapeutic significance.</p><p><strong>Data description: </strong>The ADR1 genome was sequenced using Illumina HiSeq. The assembly comprised 262 scaffolds with a total genome size of 8.4 Mb and G + C content of 72.5%, containing 7427 protein-coding genes. AntiSMASH and IIT-Hyderabad novelBGC analysis revealed 39 biosynthetic gene clusters, including non-ribosomal peptide synthetases, type I polyketide synthases, terpene and melanin clusters, correlating with the diverse therapeutic compounds previously identified through GC-MS analysis. This high-quality genome provides crucial insights into the biosynthetic potential underlying potent antimicrobial and antioxidant activities of the strain ADR1.</p>","PeriodicalId":72427,"journal":{"name":"BMC genomic data","volume":" ","pages":""},"PeriodicalIF":2.5,"publicationDate":"2026-06-26","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC13563878/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"148341201","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}