The genome of the Hi5 germ cell line from Trichoplusia ni, an agricultural pest and novel model for small RNA biology.
Yu FuYujing YangHan ZhangGwen FarleyJunling WangKaycee A QuarlesZhiping WengPhillip D ZamorePublished in: eLife (2018)
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.
Keyphrases
- genome wide
- dna methylation
- copy number
- single cell
- induced apoptosis
- genome editing
- crispr cas
- cell cycle arrest
- metal organic framework
- genome wide identification
- rna seq
- gene expression
- endoplasmic reticulum stress
- cell death
- machine learning
- healthcare
- artificial intelligence
- dna repair
- small molecule
- big data
- aedes aegypti
- deep learning
- high throughput
- binding protein
- zika virus