{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,6,22]],"date-time":"2026-06-22T13:49:07Z","timestamp":1782136147164,"version":"3.54.5"},"reference-count":90,"publisher":"American Society for Microbiology","issue":"2","license":[{"start":{"date-parts":[[2024,2,21]],"date-time":"2024-02-21T00:00:00Z","timestamp":1708473600000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"},{"start":{"date-parts":[[2024,2,21]],"date-time":"2024-02-21T00:00:00Z","timestamp":1708473600000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/journals.asm.org\/non-commercial-tdm-license"}],"funder":[{"name":"DOD | USA | AFC | CCDC | Army Research Office","award":["W911NF-19-1-0010"],"award-info":[{"award-number":["W911NF-19-1-0010"]}]},{"name":"National Science Foundation","award":["1830033"],"award-info":[{"award-number":["1830033"]}]},{"DOI":"10.13039\/501100001809","name":"National Science Foundation of China","doi-asserted-by":"crossref","award":["42076165"],"award-info":[{"award-number":["42076165"]}],"id":[{"id":"10.13039\/501100001809","id-type":"DOI","asserted-by":"crossref"}]}],"content-domain":{"domain":["journals.asm.org"],"crossmark-restriction":true},"short-container-title":["Appl Environ Microbiol"],"published-print":{"date-parts":[[2024,2,21]]},"abstract":"<jats:title>ABSTRACT<\/jats:title>\n          <jats:sec>\n            <jats:title\/>\n            <jats:p>\n              Marine macroalgae produce abundant and diverse polysaccharides, which contribute substantially to the organic matter exported to the deep ocean. Microbial degradation of these polysaccharides plays an important role in the turnover of macroalgal biomass. Various members of the\n              <jats:italic>Planctomycetes<\/jats:italic>\n              -\n              <jats:italic>Verrucomicrobia<\/jats:italic>\n              -\n              <jats:italic>Chlamydia<\/jats:italic>\n              (PVC) superphylum are degraders of polysaccharides in widespread anoxic environments. In this study, we isolated a novel anaerobic bacterial strain NLcol2\n              <jats:sup>T<\/jats:sup>\n              from microbial mats on the surface of marine sediments offshore Santa Barbara, CA, USA. Based on 16S ribosomal RNA (rRNA) gene and phylogenomic analyses, strain NLcol2\n              <jats:sup>T<\/jats:sup>\n              represents a novel species within the\n              <jats:italic>Pontiella<\/jats:italic>\n              genus in the\n              <jats:italic>Kiritimatiellota<\/jats:italic>\n              phylum (within the PVC superphylum). Strain NLcol2\n              <jats:sup>T<\/jats:sup>\n              is able to utilize various monosaccharides, disaccharides, and macroalgal polysaccharides such as agar and \u0269-carrageenan. A near-complete genome also revealed an extensive metabolic capacity for anaerobic degradation of sulfated polysaccharides, as evidenced by 202 carbohydrate-active enzymes (CAZymes) and 165 sulfatases. Additionally, its ability of nitrogen fixation was confirmed by nitrogenase activity detected during growth on nitrogen-free medium, and the presence of nitrogenases (\n              <jats:italic>nifDKH<\/jats:italic>\n              ) encoded in the genome. Based on the physiological and genomic analyses, this strain represents a new species of bacteria that may play an important role in the degradation of macroalgal polysaccharides and with relevance to the biogeochemical cycling of carbon, sulfur, and nitrogen in marine environments. Strain NLcol2\n              <jats:sup>T<\/jats:sup>\n              (= DSM 113125\n              <jats:sup>T<\/jats:sup>\n              = MCCC 1K08672\n              <jats:sup>T<\/jats:sup>\n              ) is proposed to be the type strain of a novel species in the\n              <jats:italic>Pontiella<\/jats:italic>\n              genus, and the name\n              <jats:italic>Pontiella agarivorans<\/jats:italic>\n              sp. nov. is proposed.\n            <\/jats:p>\n            <jats:sec>\n              <jats:title>IMPORTANCE<\/jats:title>\n              <jats:p>\n                Growth and intentional burial of marine macroalgae is being considered as a carbon dioxide reduction strategy but elicits concerns as to the fate and impacts of this macroalgal carbon in the ocean. Diverse heterotrophic microbial communities in the ocean specialize in these complex polymers such as carrageenan and fucoidan, for example, members of the\n                <jats:italic>Kiritimatiellota<\/jats:italic>\n                phylum. However, only four type strains within the phylum have been cultivated and characterized to date, and there is limited knowledge about the metabolic capabilities and functional roles of related organisms in the environment. The new isolate strain NLcol2\n                <jats:sup>T<\/jats:sup>\n                expands the known substrate range of this phylum and further reveals the ability to fix nitrogen during anaerobic growth on macroalgal polysaccharides, thereby informing the issue of macroalgal carbon disposal.\n              <\/jats:p>\n            <\/jats:sec>\n          <\/jats:sec>","DOI":"10.1128\/aem.00914-23","type":"journal-article","created":{"date-parts":[[2024,1,24]],"date-time":"2024-01-24T14:00:38Z","timestamp":1706104838000},"update-policy":"https:\/\/doi.org\/10.1128\/asmj-crossmark-policy-page","source":"Crossref","is-referenced-by-count":10,"title":["<i>Pontiella agarivorans<\/i>\n            sp. nov., a novel marine anaerobic bacterium capable of degrading macroalgal polysaccharides and fixing nitrogen"],"prefix":"10.1128","volume":"90","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-2071-4129","authenticated-orcid":false,"given":"Na","family":"Liu","sequence":"first","affiliation":[{"name":"Interdepartmental Graduate Program in Marine Science, University of California Santa Barbara, Santa Barbara, California, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Veronika","family":"Kivenson","sequence":"additional","affiliation":[{"name":"Interdepartmental Graduate Program in Marine Science, University of California Santa Barbara, Santa Barbara, California, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Xuefeng","family":"Peng","sequence":"additional","affiliation":[{"name":"Marine Science Institute, University of California Santa Barbara, Santa Barbara, California, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Zhisong","family":"Cui","sequence":"additional","affiliation":[{"name":"Marine Bioresource and Environment Research Center, Key Laboratory of Marine Eco-Environmental Science and Technology, First Institute of Oceanography, Ministry of Natural Resources of China, Qingdao, China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Thomas S.","family":"Lankiewicz","sequence":"additional","affiliation":[{"name":"Department of Chemical Engineering, University of California, Santa Barbara, California, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Kelsey M.","family":"Gosselin","sequence":"additional","affiliation":[{"name":"Interdepartmental Graduate Program in Marine Science, University of California Santa Barbara, Santa Barbara, California, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Chance J.","family":"English","sequence":"additional","affiliation":[{"name":"Marine Science Institute, University of California Santa Barbara, Santa Barbara, California, USA"},{"name":"Department of Ecology Evolution, and Marine Biology, University of California, Santa Barbara, California, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Elaina M.","family":"Blair","sequence":"additional","affiliation":[{"name":"Department of Chemical Engineering, University of California, Santa Barbara, California, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Michelle A.","family":"O'Malley","sequence":"additional","affiliation":[{"name":"Department of Chemical Engineering, University of California, Santa Barbara, California, USA"},{"name":"Biological Engineering Program, University of California, Santa Barbara, California, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-5914-9107","authenticated-orcid":true,"given":"David L.","family":"Valentine","sequence":"additional","affiliation":[{"name":"Marine Science Institute, University of California Santa Barbara, Santa Barbara, California, USA"},{"name":"Department of Earth Science, University of California Santa Barbara, Santa Barbara, California, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"235","reference":[{"key":"e_1_3_4_2_2","doi-asserted-by":"publisher","DOI":"10.1038\/ngeo2790"},{"key":"e_1_3_4_3_2","volume-title":"A research strategy for ocean-based carbon dioxide removal and sequestration","author":"National Academies of Sciences, Engineering, and Medicine","year":"2022","unstructured":"National Academies of Sciences, Engineering, and Medicine. 2022. A research strategy for ocean-based carbon dioxide removal and sequestration. The National Academies Press, Washington, DC. https:\/\/nap.nationalacademies.org\/catalog\/26278\/a-research-strategy-for-ocean-based-carbon-dioxide-removal-and-sequestration."},{"key":"e_1_3_4_4_2","doi-asserted-by":"publisher","DOI":"10.1038\/s41561-019-0421-8"},{"key":"e_1_3_4_5_2","doi-asserted-by":"publisher","DOI":"10.1146\/annurev-arplant-042110-103809"},{"key":"e_1_3_4_6_2","doi-asserted-by":"publisher","DOI":"10.1016\/j.tibtech.2012.10.009"},{"key":"e_1_3_4_7_2","doi-asserted-by":"publisher","DOI":"10.3389\/fmars.2017.00006"},{"key":"e_1_3_4_8_2","doi-asserted-by":"publisher","DOI":"10.1073\/pnas.1431443100"},{"key":"e_1_3_4_9_2","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0035314"},{"key":"e_1_3_4_10_2","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0151883"},{"key":"e_1_3_4_11_2","doi-asserted-by":"publisher","DOI":"10.1128\/AEM.00899-14"},{"key":"e_1_3_4_12_2","doi-asserted-by":"publisher","DOI":"10.1007\/s10482-017-0962-z"},{"key":"e_1_3_4_13_2","doi-asserted-by":"publisher","DOI":"10.1038\/ismej.2016.84"},{"key":"e_1_3_4_14_2","doi-asserted-by":"publisher","DOI":"10.1099\/ijsem.0.005056"},{"key":"e_1_3_4_15_2","doi-asserted-by":"publisher","DOI":"10.1080\/01490451.2014.913095"},{"key":"e_1_3_4_16_2","doi-asserted-by":"publisher","DOI":"10.3389\/fmicb.2019.00253"},{"key":"e_1_3_4_17_2","doi-asserted-by":"publisher","DOI":"10.3390\/microorganisms8060920"},{"key":"e_1_3_4_18_2","doi-asserted-by":"publisher","DOI":"10.1099\/ijsem.0.004370"},{"key":"e_1_3_4_19_2","doi-asserted-by":"publisher","DOI":"10.1029\/2007JG000537"},{"key":"e_1_3_4_20_2","doi-asserted-by":"publisher","DOI":"10.1016\/S0375-6742(00)00107-2"},{"key":"e_1_3_4_21_2","doi-asserted-by":"publisher","DOI":"10.1016\/j.marpetgeo.2004.08.006"},{"key":"e_1_3_4_22_2","doi-asserted-by":"publisher","DOI":"10.1186\/1471-2105-10-421"},{"key":"e_1_3_4_23_2","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gks1219"},{"key":"e_1_3_4_24_2","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/bts252"},{"key":"e_1_3_4_25_2","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btp348"},{"key":"e_1_3_4_26_2","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btu033"},{"key":"e_1_3_4_27_2","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gkz239"},{"key":"e_1_3_4_28_2","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btu170"},{"key":"e_1_3_4_29_2","unstructured":"Joshi NA Fass JN. 2011. Sickle: A sliding-window adaptive quality-based trimming tool for FastQ files (version 1.33). https:\/\/github.com\/najoshi\/sickle."},{"key":"e_1_3_4_30_2","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btv033"},{"key":"e_1_3_4_31_2","doi-asserted-by":"publisher","DOI":"10.1038\/nmeth.1923"},{"key":"e_1_3_4_32_2","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btp352"},{"key":"e_1_3_4_33_2","doi-asserted-by":"publisher","DOI":"10.7717\/peerj.1319"},{"key":"e_1_3_4_34_2","doi-asserted-by":"publisher","DOI":"10.1101\/gr.186072.114"},{"key":"e_1_3_4_35_2","doi-asserted-by":"publisher","DOI":"10.1186\/1471-2105-11-119"},{"key":"e_1_3_4_36_2","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pcbi.1002195"},{"key":"e_1_3_4_37_2","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gky995"},{"key":"e_1_3_4_38_2","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/29.1.41"},{"key":"e_1_3_4_39_2","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gky1100"},{"key":"e_1_3_4_40_2","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gkw1129"},{"key":"e_1_3_4_41_2","doi-asserted-by":"publisher","DOI":"10.5281\/zenodo.215824"},{"key":"e_1_3_4_42_2","doi-asserted-by":"publisher","DOI":"10.1186\/1471-2105-4-41"},{"key":"e_1_3_4_43_2","doi-asserted-by":"publisher","DOI":"10.1016\/j.jmb.2015.11.006"},{"key":"e_1_3_4_44_2","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gkm160"},{"key":"e_1_3_4_45_2","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gkw413"},{"key":"e_1_3_4_46_2","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gkr988"},{"key":"e_1_3_4_47_2","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gkz862"},{"key":"e_1_3_4_48_2","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btz848"},{"key":"e_1_3_4_49_2","doi-asserted-by":"publisher","DOI":"10.7287\/peerj.preprints.1900v1"},{"key":"e_1_3_4_50_2","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gky418"},{"key":"e_1_3_4_51_2","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0164846"},{"key":"e_1_3_4_52_2","doi-asserted-by":"publisher","DOI":"10.1038\/s41587-019-0036-z"},{"key":"e_1_3_4_53_2","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gkh340"},{"key":"e_1_3_4_54_2","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btp033"},{"key":"e_1_3_4_55_2","doi-asserted-by":"publisher","DOI":"10.1016\/S0021-9258(18)64849-5"},{"key":"e_1_3_4_56_2","doi-asserted-by":"publisher","DOI":"10.1021\/acssynbio.9b00271"},{"key":"e_1_3_4_57_2","doi-asserted-by":"publisher","DOI":"10.1038\/s41564-020-00861-0"},{"key":"e_1_3_4_58_2","doi-asserted-by":"publisher","DOI":"10.1016\/j.marchem.2011.09.004"},{"key":"e_1_3_4_59_2","doi-asserted-by":"publisher","DOI":"10.1038\/nrmicro3330"},{"key":"e_1_3_4_60_2","doi-asserted-by":"publisher","DOI":"10.1038\/ismej.2017.113"},{"key":"e_1_3_4_61_2","doi-asserted-by":"publisher","DOI":"10.1073\/pnas.0409727102"},{"key":"e_1_3_4_62_2","doi-asserted-by":"publisher","DOI":"10.1038\/s41467-018-07641-9"},{"key":"e_1_3_4_63_2","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pbio.1000281"},{"key":"e_1_3_4_64_2","doi-asserted-by":"publisher","DOI":"10.1038\/s41564-020-0720-2"},{"key":"e_1_3_4_65_2","doi-asserted-by":"publisher","DOI":"10.1074\/jbc.M112.377184"},{"key":"e_1_3_4_66_2","doi-asserted-by":"publisher","DOI":"10.1038\/s41467-017-01832-6"},{"key":"e_1_3_4_67_2","doi-asserted-by":"publisher","DOI":"10.1038\/s41589-019-0311-9"},{"key":"e_1_3_4_68_2","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gkab1045"},{"key":"e_1_3_4_69_2","doi-asserted-by":"publisher","DOI":"10.1021\/cb500897w"},{"key":"e_1_3_4_70_2","doi-asserted-by":"publisher","DOI":"10.1074\/jbc.M602504200"},{"key":"e_1_3_4_71_2","doi-asserted-by":"publisher","DOI":"10.1016\/j.copbio.2006.05.005"},{"key":"e_1_3_4_72_2","doi-asserted-by":"publisher","DOI":"10.1016\/j.carres.2003.09.015"},{"key":"e_1_3_4_73_2","doi-asserted-by":"publisher","DOI":"10.1246\/bcsj.29.543"},{"key":"e_1_3_4_74_2","doi-asserted-by":"publisher","DOI":"10.1038\/2051060a0"},{"key":"e_1_3_4_75_2","doi-asserted-by":"publisher","DOI":"10.1016\/S0008-6215(00)86113-3"},{"key":"e_1_3_4_76_2","doi-asserted-by":"publisher","DOI":"10.1016\/j.carbpol.2015.09.087"},{"key":"e_1_3_4_77_2","doi-asserted-by":"publisher","DOI":"10.1073\/pnas.1211002109"},{"key":"e_1_3_4_78_2","doi-asserted-by":"publisher","DOI":"10.1038\/s41598-022-11819-z"},{"key":"e_1_3_4_79_2","doi-asserted-by":"publisher","DOI":"10.1128\/JB.00860-16"},{"key":"e_1_3_4_80_2","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pbio.0030334"},{"key":"e_1_3_4_81_2","doi-asserted-by":"publisher","DOI":"10.1038\/nature08937"},{"key":"e_1_3_4_82_2","doi-asserted-by":"publisher","DOI":"10.1146\/annurev.biochem.78.070907.103812"},{"key":"e_1_3_4_83_2","doi-asserted-by":"publisher","DOI":"10.1128\/MMBR.65.1.80-105.2001"},{"key":"e_1_3_4_84_2","doi-asserted-by":"publisher","DOI":"10.1016\/j.bbapap.2009.01.002"},{"key":"e_1_3_4_85_2","doi-asserted-by":"publisher","DOI":"10.1099\/mic.0.036061-0"},{"key":"e_1_3_4_86_2","doi-asserted-by":"publisher","DOI":"10.1128\/AEM.06466-11"},{"key":"e_1_3_4_87_2","doi-asserted-by":"publisher","DOI":"10.3389\/fmicb.2017.02131"},{"key":"e_1_3_4_88_2","doi-asserted-by":"publisher","DOI":"10.1038\/s41564-018-0209-4"},{"key":"e_1_3_4_89_2","doi-asserted-by":"publisher","DOI":"10.1046\/j.1462-2920.2003.00451.x"},{"key":"e_1_3_4_90_2","doi-asserted-by":"publisher","DOI":"10.1109\/MCSE.2014.80"},{"key":"e_1_3_4_91_2","doi-asserted-by":"publisher","DOI":"10.1145\/3569951.3597559"}],"container-title":["Applied and Environmental Microbiology"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/journals.asm.org\/doi\/pdf\/10.1128\/aem.00914-23","content-type":"application\/pdf","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/journals.asm.org\/doi\/pdf\/10.1128\/aem.00914-23","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2024,3,6]],"date-time":"2024-03-06T06:37:20Z","timestamp":1709707040000},"score":1,"resource":{"primary":{"URL":"https:\/\/journals.asm.org\/doi\/10.1128\/aem.00914-23"}},"subtitle":[],"editor":[{"given":"Jennifer B.","family":"Glass","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"editor"}]}],"short-title":[],"issued":{"date-parts":[[2024,2,21]]},"references-count":90,"journal-issue":{"issue":"2","published-print":{"date-parts":[[2024,2,21]]}},"alternative-id":["10.1128\/aem.00914-23"],"URL":"https:\/\/doi.org\/10.1128\/aem.00914-23","relation":{},"ISSN":["0099-2240","1098-5336"],"issn-type":[{"value":"0099-2240","type":"print"},{"value":"1098-5336","type":"electronic"}],"subject":[],"published":{"date-parts":[[2024,2,21]]},"assertion":[{"value":"2023-06-07","order":0,"name":"received","label":"Received","group":{"name":"publication_history","label":"Publication History"}},{"value":"2023-12-05","order":1,"name":"accepted","label":"Accepted","group":{"name":"publication_history","label":"Publication History"}},{"value":"2024-01-24","order":2,"name":"published","label":"Published","group":{"name":"publication_history","label":"Publication History"}}],"article-number":"e00914-23"}}