{"corpus_id":245118920,"paper_sha":"8950856065299e2c0717bc852b39f1508b6cfac2","doi":"10.3389/fmicb.2021.768240","arxiv_id":null,"pmid":34966365,"pmcid":"8710813","mag_id":null,"dblp_id":null,"acl_id":null,"title":"A Round Trip to the Desert: In situ Nanopore Sequencing Informs Targeted Bioprospecting","year":2021,"publication_date":"2021-12-13","venue":"Frontiers in Microbiology","journal":{"name":"Frontiers in Microbiology","pages":null,"volume":"12"},"journal_issn":null,"journal_title":null,"publication_types":["JournalArticle"],"pubmed_pub_types":["Journal Article"],"s2_fields_of_study":["Biology","Medicine","Environmental Science"],"reference_count":83,"citation_count":21,"influential_citation_count":1,"is_open_access":true,"arxiv_categories":null,"arxiv_license":null,"arxiv_journal_ref":null,"mesh_headings":null,"chemicals":null,"comments_corrections":null,"source_flags":5,"s2_open_access_pdf_url":"https://digital.csic.es/bitstream/10261/261984/1/aroundbio.pdf","s2_open_access_landing_url":"https://www.semanticscholar.org/paper/8950856065299e2c0717bc852b39f1508b6cfac2","s2_open_access_license":"CCBY","s2_open_access_status":"GREEN","pmc_open_access_pdf_url":null,"pmc_open_access_landing_url":null,"pmc_open_access_license":null,"pmc_open_access_status":null,"unpaywall_open_access_pdf_url":null,"unpaywall_open_access_landing_url":null,"unpaywall_open_access_license":null,"unpaywall_open_access_status":null,"abstract":"Bioprospecting expeditions are often performed in remote locations, in order to access previously unexplored samples. Nevertheless, the actual potential of those samples is only assessed once scientists are back in the laboratory, where a time-consuming screening must take place. This work evaluates the suitability of using Nanopore sequencing during a journey to the Tabernas Desert (Spain) for forecasting the potential of specific samples in terms of bacterial diversity and prevalence of radiation- and desiccation-resistant taxa, which were the target of the bioprospecting activities. Samples collected during the first day were analyzed through 16S rRNA gene sequencing using a mobile laboratory. Results enabled the identification of locations showing the greatest and the least potential, and a second, informed sampling was performed focusing on those sites. After finishing the expedition, a culture collection of 166 strains belonging to 50 different genera was established. Overall, Nanopore and culturing data correlated well, since samples holding a greater potential at the microbiome level also yielded a more interesting set of microbial isolates, whereas samples showing less biodiversity resulted in a reduced (and redundant) set of culturable bacteria. Thus, we anticipate that portable sequencers hold potential as key, easy-to-use tools for in situ-informed bioprospecting strategies.","claims":[{"public_id":"cl_3eb192bce38bc204f2bdff3347377bc6","status":"active","text":"A culture collection of 166 strains belonging to 50 different genera was established after the expedition.","confidence":0.95,"contributors":[{"id":62,"public_id":"513602784d","public_label":"Anonymous (513602784d)","roles":["extraction"],"url":"https://sah.borca.ai/u/513602784d"},{"id":17,"public_id":"322360f1c1","public_label":"Killer Whale (322360f1c1)","roles":["review"],"url":"https://sah.borca.ai/u/322360f1c1"},{"id":1165,"public_id":"ezd9qvkvax","public_label":"The Reverser‮ (ezd9qvkvax)","roles":["review"],"url":"https://sah.borca.ai/u/ezd9qvkvax"}],"url":"https://sah.borca.ai/claims/cl_3eb192bce38bc204f2bdff3347377bc6"},{"public_id":"cl_e1a1f05d774823a6960f567e78abf560","status":"active","text":"Nanopore and culturing data correlated well: samples with greater microbiome potential yielded more interesting microbial isolates, while less biodiverse samples yielded reduced and redundant culturable bacteria.","confidence":0.9,"contributors":[{"id":62,"public_id":"513602784d","public_label":"Anonymous (513602784d)","roles":["extraction"],"url":"https://sah.borca.ai/u/513602784d"},{"id":17,"public_id":"322360f1c1","public_label":"Killer Whale (322360f1c1)","roles":["review"],"url":"https://sah.borca.ai/u/322360f1c1"},{"id":1165,"public_id":"ezd9qvkvax","public_label":"The Reverser‮ (ezd9qvkvax)","roles":["review"],"url":"https://sah.borca.ai/u/ezd9qvkvax"}],"url":"https://sah.borca.ai/claims/cl_e1a1f05d774823a6960f567e78abf560"},{"public_id":"cl_b70fd9b6adcded5e223397e680efc724","status":"active","text":"Nanopore sequencing during a journey to the Tabernas Desert enabled identification of locations with greatest and least potential for radiation- and desiccation-resistant taxa, informing a second, targeted sampling.","confidence":0.95,"contributors":[{"id":62,"public_id":"513602784d","public_label":"Anonymous (513602784d)","roles":["extraction"],"url":"https://sah.borca.ai/u/513602784d"},{"id":17,"public_id":"322360f1c1","public_label":"Killer Whale (322360f1c1)","roles":["review"],"url":"https://sah.borca.ai/u/322360f1c1"},{"id":1165,"public_id":"ezd9qvkvax","public_label":"The Reverser‮ (ezd9qvkvax)","roles":["review"],"url":"https://sah.borca.ai/u/ezd9qvkvax"}],"url":"https://sah.borca.ai/claims/cl_b70fd9b6adcded5e223397e680efc724"}],"concepts":[{"public_id":"co_4f6ad53535a92fe808ee96fa267bbe53","status":"active","name":"Tabernas Desert","description":"Remote desert location in Spain where the bioprospecting expedition and in situ sequencing were conducted.","types":["location"],"aliases":[],"contributors":[{"id":62,"public_id":"513602784d","public_label":"Anonymous 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