The genome of the Hi5 germ cell line from Trichoplusia ni, an agricultural pest and novel model for small RNA biology
| dc.contributor.author | Fu, Yu | |
| dc.contributor.author | Yang, Yujing | |
| dc.contributor.author | Zhang, Han | |
| dc.contributor.author | Farley, Gwen | |
| dc.contributor.author | Wang, Junling | |
| dc.contributor.author | Quarles, Kaycee A. | |
| dc.contributor.author | Weng, Zhiping | |
| dc.contributor.author | Zamore, Phillip D. | |
| dc.date | 2022-08-11T08:09:48.000 | |
| dc.date.accessioned | 2022-08-23T16:44:17Z | |
| dc.date.available | 2022-08-23T16:44:17Z | |
| dc.date.issued | 2018-01-29 | |
| dc.date.submitted | 2018-02-22 | |
| dc.identifier.citation | <p>Elife. 2018 Jan 29;7. pii: 31628. doi: 10.7554/eLife.31628. <a href="https://doi.org/10.7554/eLife.31628">Link to article on publisher's site</a></p> | |
| dc.identifier.issn | 2050-084X (Linking) | |
| dc.identifier.doi | 10.7554/eLife.31628 | |
| dc.identifier.pmid | 29376823 | |
| dc.identifier.uri | http://hdl.handle.net/20.500.14038/40470 | |
| dc.description.abstract | We report a draft assembly of the genome of Hi5 cells from the lepidopteran insect pest, Trichoplusia ni, assigning 90.6% of bases to one of 28 chromosomes and predicting 14,037 protein-coding genes. Chemoreception and detoxification gene families reveal T. ni-specific gene expansions that may explain its widespread distribution and rapid adaptation to insecticides. Transcriptome and small RNA data from thorax, ovary, testis, and the germline-derived Hi5 cell line show distinct expression profiles for 295 microRNA- and > 393 piRNA-producing loci, as well as 39 genes encoding small RNA pathway proteins. Nearly all of the W chromosome is devoted to piRNA production, and T. ni siRNAs are not 2 -O-methylated. To enable use of Hi5 cells as a model system, we have established genome editing and single-cell cloning protocols. The T. ni genome provides insights into pest control and allows Hi5 cells to become a new tool for studying small RNAs ex vivo. | |
| dc.language.iso | en_US | |
| dc.relation | <p><a href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=pubmed&cmd=Retrieve&list_uids=29376823&dopt=Abstract">Link to Article in PubMed</a></p> | |
| dc.rights | © 2018, Fu et al. This article is distributed under the terms of the Creative Commons Attribution License permitting unrestricted use and redistribution provided that the original author and source are credited. | |
| dc.rights.uri | http://creativecommons.org/licenses/by/4.0/ | |
| dc.subject | chromosomes | |
| dc.subject | evolutionary biology | |
| dc.subject | genes | |
| dc.subject | genomics | |
| dc.subject | genome assembly | |
| dc.subject | piRNA | |
| dc.subject | siRNA | |
| dc.subject | miRNA | |
| dc.subject | sex determination | |
| dc.subject | cultured cell | |
| dc.subject | 41 High Five | |
| dc.subject | CRISPR | |
| dc.subject | cabbage looper | |
| dc.subject | Trichoplusia ni | |
| dc.subject | Lepidoptera | |
| dc.subject | Biology | |
| dc.subject | Computational Biology | |
| dc.subject | Ecology and Evolutionary Biology | |
| dc.subject | Genetics | |
| dc.subject | Genomics | |
| dc.title | The genome of the Hi5 germ cell line from Trichoplusia ni, an agricultural pest and novel model for small RNA biology | |
| dc.type | Accepted Manuscript | |
| dc.source.journaltitle | eLife | |
| dc.source.volume | 7 | |
| dc.identifier.legacyfulltext | https://escholarship.umassmed.edu/cgi/viewcontent.cgi?article=4285&context=oapubs&unstamped=1 | |
| dc.identifier.legacycoverpage | https://escholarship.umassmed.edu/oapubs/3274 | |
| dc.identifier.contextkey | 11625481 | |
| refterms.dateFOA | 2022-08-23T16:44:17Z | |
| html.description.abstract | <p>We report a draft assembly of the genome of Hi5 cells from the lepidopteran insect pest, Trichoplusia ni, assigning 90.6% of bases to one of 28 chromosomes and predicting 14,037 protein-coding genes. Chemoreception and detoxification gene families reveal T. ni-specific gene expansions that may explain its widespread distribution and rapid adaptation to insecticides. Transcriptome and small RNA data from thorax, ovary, testis, and the germline-derived Hi5 cell line show distinct expression profiles for 295 microRNA- and > 393 piRNA-producing loci, as well as 39 genes encoding small RNA pathway proteins. Nearly all of the W chromosome is devoted to piRNA production, and T. ni siRNAs are not 2 -O-methylated. To enable use of Hi5 cells as a model system, we have established genome editing and single-cell cloning protocols. The T. ni genome provides insights into pest control and allows Hi5 cells to become a new tool for studying small RNAs ex vivo.</p> | |
| dc.identifier.submissionpath | oapubs/3274 | |
| dc.contributor.department | Department of Biochemistry and Molecular Pharmacology | |
| dc.contributor.department | Program in Bioinformatics and Integrative Biology | |
| dc.contributor.department | RNA Therapeutics Institute | |
| dc.source.pages | 31628 |
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