Metabolic diversity and ecological niches of Achromatium populations revealed with single-cell genomic sequencing
Large, sulfur-cycling, calcite-precipitating bacteria in the genus Achromatium represent a significant proportion of bacterial communities near sediment-water interfaces throughout the world. Our understanding of their potentially crucial roles in calcium, carbon, sulfur, nitrogen, and iron cycling...
| Main Authors: | , , , |
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| Format: | Article |
| Language: | English |
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Frontiers Media S.A.
2015-08-01
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| Series: | Frontiers in Microbiology |
| Subjects: | |
| Online Access: | http://journal.frontiersin.org/Journal/10.3389/fmicb.2015.00822/full |
| _version_ | 1811261600899792896 |
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| author | Muammar eMansor Trinity L Hamilton Matthew S Fantle Jennifer eMacalady |
| author_facet | Muammar eMansor Trinity L Hamilton Matthew S Fantle Jennifer eMacalady |
| author_sort | Muammar eMansor |
| collection | DOAJ |
| description | Large, sulfur-cycling, calcite-precipitating bacteria in the genus Achromatium represent a significant proportion of bacterial communities near sediment-water interfaces throughout the world. Our understanding of their potentially crucial roles in calcium, carbon, sulfur, nitrogen, and iron cycling is limited because they have not been cultured or sequenced using environmental genomics approaches to date. We utilized single-cell genomic sequencing to obtain one incomplete and two nearly complete draft genomes for Achromatium collected at Warm Mineral Springs, FL. Based on 16S rRNA gene sequences, the three cells represent distinct and relatively distant Achromatium populations (91-92% identity). The draft genomes encode key genes involved in sulfur and hydrogen oxidation; oxygen, nitrogen and polysulfide respiration; carbon and nitrogen fixation; organic carbon assimilation and storage; chemotaxis; twitching motility; antibiotic resistance; and membrane transport. Known genes for iron and manganese energy metabolism were not detected. The presence of pyrophosphatase and vacuolar (V)-type ATPases, which are generally rare in bacterial genomes, suggests a role for these enzymes in calcium transport, proton pumping, and/or energy generation in the membranes of calcite-containing inclusions. |
| first_indexed | 2024-04-12T19:07:27Z |
| format | Article |
| id | doaj.art-14989fcf2ff5418fb6d9369d756e7711 |
| institution | Directory Open Access Journal |
| issn | 1664-302X |
| language | English |
| last_indexed | 2024-04-12T19:07:27Z |
| publishDate | 2015-08-01 |
| publisher | Frontiers Media S.A. |
| record_format | Article |
| series | Frontiers in Microbiology |
| spelling | doaj.art-14989fcf2ff5418fb6d9369d756e77112022-12-22T03:19:59ZengFrontiers Media S.A.Frontiers in Microbiology1664-302X2015-08-01610.3389/fmicb.2015.00822154703Metabolic diversity and ecological niches of Achromatium populations revealed with single-cell genomic sequencingMuammar eMansor0Trinity L Hamilton1Matthew S Fantle2Jennifer eMacalady3Penn State UniversityUniversity of CincinnatiPenn State UniversityPennsylvania State UniversityLarge, sulfur-cycling, calcite-precipitating bacteria in the genus Achromatium represent a significant proportion of bacterial communities near sediment-water interfaces throughout the world. Our understanding of their potentially crucial roles in calcium, carbon, sulfur, nitrogen, and iron cycling is limited because they have not been cultured or sequenced using environmental genomics approaches to date. We utilized single-cell genomic sequencing to obtain one incomplete and two nearly complete draft genomes for Achromatium collected at Warm Mineral Springs, FL. Based on 16S rRNA gene sequences, the three cells represent distinct and relatively distant Achromatium populations (91-92% identity). The draft genomes encode key genes involved in sulfur and hydrogen oxidation; oxygen, nitrogen and polysulfide respiration; carbon and nitrogen fixation; organic carbon assimilation and storage; chemotaxis; twitching motility; antibiotic resistance; and membrane transport. Known genes for iron and manganese energy metabolism were not detected. The presence of pyrophosphatase and vacuolar (V)-type ATPases, which are generally rare in bacterial genomes, suggests a role for these enzymes in calcium transport, proton pumping, and/or energy generation in the membranes of calcite-containing inclusions.http://journal.frontiersin.org/Journal/10.3389/fmicb.2015.00822/fullSulfur oxidationsingle-cell genomicsbiomineralV-type ATPasecarbonate precipitationInclusion membrane proteins |
| spellingShingle | Muammar eMansor Trinity L Hamilton Matthew S Fantle Jennifer eMacalady Metabolic diversity and ecological niches of Achromatium populations revealed with single-cell genomic sequencing Frontiers in Microbiology Sulfur oxidation single-cell genomics biomineral V-type ATPase carbonate precipitation Inclusion membrane proteins |
| title | Metabolic diversity and ecological niches of Achromatium populations revealed with single-cell genomic sequencing |
| title_full | Metabolic diversity and ecological niches of Achromatium populations revealed with single-cell genomic sequencing |
| title_fullStr | Metabolic diversity and ecological niches of Achromatium populations revealed with single-cell genomic sequencing |
| title_full_unstemmed | Metabolic diversity and ecological niches of Achromatium populations revealed with single-cell genomic sequencing |
| title_short | Metabolic diversity and ecological niches of Achromatium populations revealed with single-cell genomic sequencing |
| title_sort | metabolic diversity and ecological niches of achromatium populations revealed with single cell genomic sequencing |
| topic | Sulfur oxidation single-cell genomics biomineral V-type ATPase carbonate precipitation Inclusion membrane proteins |
| url | http://journal.frontiersin.org/Journal/10.3389/fmicb.2015.00822/full |
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