Parallel engineering of environmental bacteria and performance over years under jungle-simulated conditions
<jats:p>Engineered bacteria could perform many functions in the environment, for example, to remediate pollutants, deliver nutrients to crops or act as in-field biosensors. Model organisms can be unreliable in the field, but selecting an isolate from the thousands that naturally live there and...
| Main Authors: | , , , , , , , , |
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| Format: | Article |
| Language: | English |
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Public Library of Science (PLoS)
2022
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| Online Access: | https://hdl.handle.net/1721.1/146910 |
| _version_ | 1826211420258172928 |
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| author | Chemla, Yonatan Dorfan, Yuval Yannai, Adi Meng, Dechuan Cao, Paul Glaven, Sarah Gordon, D Benjamin Elbaz, Johann Voigt, Christopher A |
| author2 | Massachusetts Institute of Technology. Synthetic Biology Center |
| author_facet | Massachusetts Institute of Technology. Synthetic Biology Center Chemla, Yonatan Dorfan, Yuval Yannai, Adi Meng, Dechuan Cao, Paul Glaven, Sarah Gordon, D Benjamin Elbaz, Johann Voigt, Christopher A |
| author_sort | Chemla, Yonatan |
| collection | MIT |
| description | <jats:p>Engineered bacteria could perform many functions in the environment, for example, to remediate pollutants, deliver nutrients to crops or act as in-field biosensors. Model organisms can be unreliable in the field, but selecting an isolate from the thousands that naturally live there and genetically manipulating them to carry the desired function is a slow and uninformed process. Here, we demonstrate the parallel engineering of isolates from environmental samples by using the broad-host-range XPORT conjugation system (<jats:italic>Bacillus subtilis</jats:italic> mini-ICE<jats:italic>Bs</jats:italic>1) to transfer a genetic payload to many isolates in parallel. <jats:italic>Bacillus</jats:italic> and <jats:italic>Lysinibacillus</jats:italic> species were obtained from seven soil and water samples from different locations in Israel. XPORT successfully transferred a genetic function (reporter expression) into 25 of these isolates. They were then screened to identify the best-performing chassis based on the expression level, doubling time, functional stability in soil, and environmentally-relevant traits of its closest annotated reference species, such as the ability to sporulate and temperature tolerance. From this library, we selected <jats:italic>Bacillus frigoritolerans</jats:italic> A3E1, re-introduced it to soil, and measured function and genetic stability in a contained environment that replicates jungle conditions. After 21 months of storage, the engineered bacteria were viable, could perform their function, and did not accumulate disruptive mutations.</jats:p> |
| first_indexed | 2024-09-23T15:05:37Z |
| format | Article |
| id | mit-1721.1/146910 |
| institution | Massachusetts Institute of Technology |
| language | English |
| last_indexed | 2024-09-23T15:05:37Z |
| publishDate | 2022 |
| publisher | Public Library of Science (PLoS) |
| record_format | dspace |
| spelling | mit-1721.1/1469102023-07-05T20:00:11Z Parallel engineering of environmental bacteria and performance over years under jungle-simulated conditions Chemla, Yonatan Dorfan, Yuval Yannai, Adi Meng, Dechuan Cao, Paul Glaven, Sarah Gordon, D Benjamin Elbaz, Johann Voigt, Christopher A Massachusetts Institute of Technology. Synthetic Biology Center Massachusetts Institute of Technology. Department of Biological Engineering <jats:p>Engineered bacteria could perform many functions in the environment, for example, to remediate pollutants, deliver nutrients to crops or act as in-field biosensors. Model organisms can be unreliable in the field, but selecting an isolate from the thousands that naturally live there and genetically manipulating them to carry the desired function is a slow and uninformed process. Here, we demonstrate the parallel engineering of isolates from environmental samples by using the broad-host-range XPORT conjugation system (<jats:italic>Bacillus subtilis</jats:italic> mini-ICE<jats:italic>Bs</jats:italic>1) to transfer a genetic payload to many isolates in parallel. <jats:italic>Bacillus</jats:italic> and <jats:italic>Lysinibacillus</jats:italic> species were obtained from seven soil and water samples from different locations in Israel. XPORT successfully transferred a genetic function (reporter expression) into 25 of these isolates. They were then screened to identify the best-performing chassis based on the expression level, doubling time, functional stability in soil, and environmentally-relevant traits of its closest annotated reference species, such as the ability to sporulate and temperature tolerance. From this library, we selected <jats:italic>Bacillus frigoritolerans</jats:italic> A3E1, re-introduced it to soil, and measured function and genetic stability in a contained environment that replicates jungle conditions. After 21 months of storage, the engineered bacteria were viable, could perform their function, and did not accumulate disruptive mutations.</jats:p> 2022-12-19T13:56:13Z 2022-12-19T13:56:13Z 2022 2022-12-19T13:48:42Z Article http://purl.org/eprint/type/JournalArticle https://hdl.handle.net/1721.1/146910 Chemla, Yonatan, Dorfan, Yuval, Yannai, Adi, Meng, Dechuan, Cao, Paul et al. 2022. "Parallel engineering of environmental bacteria and performance over years under jungle-simulated conditions." PLOS ONE, 17 (12). en 10.1371/journal.pone.0278471 PLOS ONE Creative Commons Attribution 4.0 International license https://creativecommons.org/licenses/by/4.0/ application/pdf Public Library of Science (PLoS) PLoS |
| spellingShingle | Chemla, Yonatan Dorfan, Yuval Yannai, Adi Meng, Dechuan Cao, Paul Glaven, Sarah Gordon, D Benjamin Elbaz, Johann Voigt, Christopher A Parallel engineering of environmental bacteria and performance over years under jungle-simulated conditions |
| title | Parallel engineering of environmental bacteria and performance over years under jungle-simulated conditions |
| title_full | Parallel engineering of environmental bacteria and performance over years under jungle-simulated conditions |
| title_fullStr | Parallel engineering of environmental bacteria and performance over years under jungle-simulated conditions |
| title_full_unstemmed | Parallel engineering of environmental bacteria and performance over years under jungle-simulated conditions |
| title_short | Parallel engineering of environmental bacteria and performance over years under jungle-simulated conditions |
| title_sort | parallel engineering of environmental bacteria and performance over years under jungle simulated conditions |
| url | https://hdl.handle.net/1721.1/146910 |
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