{"doi":"10.3389/fmicb.2016.00469","title":"Reconstruction of Bacterial and Viral Genomes from Multiple Metagenomes","abstract":null,"journal":"Frontiers in Microbiology","year":2016,"id":590564,"datarank":0.9175124761951838,"base_score":2.70805020110221,"endowment":2.70805020110221,"self_citation_contribution":0.40620753016533157,"citation_network_contribution":0.5113049460298522,"self_endowment_contribution":0.40620753016533157,"citer_contribution":0.5113049460298522,"corpus_percentile":null,"corpus_rank":null,"citation_count":14,"citer_count":13,"citers_with_citation_signal":13,"citers_with_endowment":13,"datacite_reuse_total":0,"is_dataset":false,"is_dataset_confidence":null,"is_data_producer":false,"deposit_databanks":null,"is_oa":false,"file_count":0,"downloads":0,"has_version_chain":false,"published_date":null,"fair_score":null,"fair_percentile":null,"algorithm_id":"datarank_citation_only_1hop_v6","ranking_scope":"data_only","authors":[{"id":467764,"name":"Sanjiv Kumar","orcid":"0000-0003-0844-5090","position":1,"is_corresponding":false},{"id":1510989,"name":"Vishnu P. K. Prasoodanan","orcid":null,"position":2,"is_corresponding":false},{"id":1510990,"name":"K. Harish","orcid":null,"position":3,"is_corresponding":false},{"id":1510991,"name":"Ashok K. Sharma","orcid":null,"position":4,"is_corresponding":false},{"id":130642,"name":"Vineet K. Sharma","orcid":null,"position":5,"is_corresponding":false},{"id":1459585,"name":"Ankit Gupta","orcid":"0009-0001-0950-5983","position":0,"is_corresponding":false}],"reference_count":0,"raw_metadata":{"has_enrichment":true,"resolved":true,"title":"Reconstruction of Bacterial and Viral Genomes from Multiple Metagenomes","abstract":"Several metagenomic projects have been accomplished or are in progress. However, in most cases, it is not feasible to generate complete genomic assemblies of species from the metagenomic sequencing of a complex environment. Only a few studies have reported the reconstruction of bacterial genomes from complex metagenomes. In this work, Binning-Assembly approach has been proposed and demonstrated for the reconstruction of bacterial and viral genomes from 72 human gut metagenomic datasets. A total 1156 bacterial genomes belonging to 219 bacterial families and, 279 viral genomes belonging to 84 viral families could be identified. More than 80% complete draft genome sequences could be reconstructed for a total of 126 bacterial and 11 viral genomes. Selected draft assembled genomes could be validated with 99.8% accuracy using their ORFs. The study provides useful information on the assembly expected for a species given its number of reads and abundance. This approach along with spiking was also demonstrated to be useful in improving the draft assembly of a bacterial genome. The Binning-Assembly approach can be successfully used to reconstruct bacterial and viral genomes from multiple metagenomic datasets obtained from similar environments.","is_dataset_classified":null,"base_score":2.70805020110221,"endowment":2.70805020110221,"datacite_reuse_total":0,"file_count":0,"downloads":0,"views":0,"has_version_chain":false,"is_dataset":false,"is_oa":false,"pmid":"27148174","pmcid":"PMC4828583","openalex_id":"https://openalex.org/W2340204314","authors":[],"funders":[],"total_grants":0,"fwci":1.4428,"citation_percentile":0.81731335,"influential_citations":0,"citation_trend":[{"year":2017,"count":3},{"year":2018,"count":3},{"year":2019,"count":3},{"year":2020,"count":1},{"year":2021,"count":2},{"year":2022,"count":2}],"oa_status":"gold","license":"cc-by","oa_locations":[{"url":"https://www.frontiersin.org/articles/10.3389/fmicb.2016.00469/pdf","host_type":"journal"},{"url":"https://www.frontiersin.org/articles/10.3389/fmicb.2016.00469/pdf","host_type":"publisher"},{"url":"https://doi.org/10.3389/fmicb.2016.00469","host_type":"journal"},{"url":"https://pubmed.ncbi.nlm.nih.gov/27148174","host_type":"repository"},{"url":"https://doaj.org/article/85d15dc6b4e24edc89e015be8e47566e","host_type":"repository"},{"url":"https://www.ncbi.nlm.nih.gov/pmc/articles/4828583","host_type":"repository"},{"url":"https://europepmc.org/articles/PMC4828583","host_type":"Europe_PMC"},{"url":"https://europepmc.org/articles/PMC4828583?pdf=render","host_type":"Europe_PMC"}],"fields_of_study":["Genomics and Phylogenetic Studies","Probiotics and Fermented Foods","Bacteriophages and microbial interactions"],"mesh_terms":[],"keywords":["Metagenomics","Genome","Bacterial genome size","ORFS","Biology","Computational biology","Sequence assembly","Genetics","Gene","Open reading frame","Transcriptome","metagenome","Genome Assembly","Binning","Spiking","Bacterial Draft Genomes","Viral Draft Genomes"],"sdg_mappings":[{"sdg_number":0,"sdg_label":"Life in Land"}],"linked_datasets":[],"clinical_trials":[],"software_tools":[],"database_accessions":[],"source":"live","citation_network_status":"fetched"},"created_at":"2026-07-25T02:10:34.090500Z","pmid":null,"pmcid":null,"fwci":null,"citation_percentile":null,"influential_citations":0,"oa_status":null,"license":null,"views":0,"total_file_size_bytes":0,"version_count":0,"fair_f":null,"fair_a":null,"fair_i":null,"fair_r":null,"fair_zscore":null,"fair_rationale":null,"fair_model":null,"fair_agent_version":null,"fair_fulltext_source":null,"fair_has_llm":null,"fair_computed_at":null,"clinical_trials":[],"software_tools":[],"db_accessions":[],"linked_datasets":[],"topics":[]}