Genome Sequencing of Hericium coralloides by a Combination of PacBio RS II and Next-Generation Sequencing Platforms
The fruiting bodies or mycelia of Hericium coralloides (H. coralloides) contain many physiologically active compounds that are used to treat various diseases, including cardiovascular disorders and cancers. However, the genome of H. coralloides has not been sequenced, which hinders further investiga...
Saved in:
| Main Authors: | , , , , |
|---|---|
| Format: | Article |
| Language: | English |
| Published: |
Wiley
2022-01-01
|
| Series: | International Journal of Genomics |
| Online Access: | http://dx.doi.org/10.1155/2022/4017654 |
| Tags: |
Add Tag
No Tags, Be the first to tag this record!
|
| _version_ | 1832548381243736064 |
|---|---|
| author | Caixia Zhang Lijun Xu Jian Li Jiansong Chen Manjun Yang |
| author_facet | Caixia Zhang Lijun Xu Jian Li Jiansong Chen Manjun Yang |
| author_sort | Caixia Zhang |
| collection | DOAJ |
| description | The fruiting bodies or mycelia of Hericium coralloides (H. coralloides) contain many physiologically active compounds that are used to treat various diseases, including cardiovascular disorders and cancers. However, the genome of H. coralloides has not been sequenced, which hinders further investigations into aspects, such as bioactivity or evolutionary events. The present study is aimed at (i) performing de novo sequencing of the assembled genome; (ii) mapping the reads from PE400 DNA into the assembled genome; (iii) identifying the full length of all the repeated sequences; and (iv) annotating protein-coding genes using GO, eggNOG, and KEGG databases. The assembled genome comprised 5,59,05,675 bp, including 307 contigs. The mapping rate of reads obtained from PE400 DNA in the assembled genome was 92.46%. We identified 2,525 repeated sequences of 14,23,274 bp length. We predicted ncRNAs of 48,895 bp and 11,736 genes encoding proteins that were annotated in the GO, eggNOG, and KEGG databases. We are the first to sequence the entire H. coralloides genome (NCBI; Assembly: ASM367540v1), which will serve as a reference for studying the evolutionary diversification of edible and medicinal mushrooms and facilitate the application of bioactivity in H. coralloides. |
| format | Article |
| id | doaj-art-1b8d3d30ab614d0096134ab21a2c178b |
| institution | Kabale University |
| issn | 2314-4378 |
| language | English |
| publishDate | 2022-01-01 |
| publisher | Wiley |
| record_format | Article |
| series | International Journal of Genomics |
| spelling | doaj-art-1b8d3d30ab614d0096134ab21a2c178b2025-02-03T06:14:10ZengWileyInternational Journal of Genomics2314-43782022-01-01202210.1155/2022/4017654Genome Sequencing of Hericium coralloides by a Combination of PacBio RS II and Next-Generation Sequencing PlatformsCaixia Zhang0Lijun Xu1Jian Li2Jiansong Chen3Manjun Yang4Tibet Vocational Technical CollegeTibet University of Tibetan MedicineChina Institute of Veterinary Drug ControlSchool of Life SciencesTibet Vocational Technical CollegeThe fruiting bodies or mycelia of Hericium coralloides (H. coralloides) contain many physiologically active compounds that are used to treat various diseases, including cardiovascular disorders and cancers. However, the genome of H. coralloides has not been sequenced, which hinders further investigations into aspects, such as bioactivity or evolutionary events. The present study is aimed at (i) performing de novo sequencing of the assembled genome; (ii) mapping the reads from PE400 DNA into the assembled genome; (iii) identifying the full length of all the repeated sequences; and (iv) annotating protein-coding genes using GO, eggNOG, and KEGG databases. The assembled genome comprised 5,59,05,675 bp, including 307 contigs. The mapping rate of reads obtained from PE400 DNA in the assembled genome was 92.46%. We identified 2,525 repeated sequences of 14,23,274 bp length. We predicted ncRNAs of 48,895 bp and 11,736 genes encoding proteins that were annotated in the GO, eggNOG, and KEGG databases. We are the first to sequence the entire H. coralloides genome (NCBI; Assembly: ASM367540v1), which will serve as a reference for studying the evolutionary diversification of edible and medicinal mushrooms and facilitate the application of bioactivity in H. coralloides.http://dx.doi.org/10.1155/2022/4017654 |
| spellingShingle | Caixia Zhang Lijun Xu Jian Li Jiansong Chen Manjun Yang Genome Sequencing of Hericium coralloides by a Combination of PacBio RS II and Next-Generation Sequencing Platforms International Journal of Genomics |
| title | Genome Sequencing of Hericium coralloides by a Combination of PacBio RS II and Next-Generation Sequencing Platforms |
| title_full | Genome Sequencing of Hericium coralloides by a Combination of PacBio RS II and Next-Generation Sequencing Platforms |
| title_fullStr | Genome Sequencing of Hericium coralloides by a Combination of PacBio RS II and Next-Generation Sequencing Platforms |
| title_full_unstemmed | Genome Sequencing of Hericium coralloides by a Combination of PacBio RS II and Next-Generation Sequencing Platforms |
| title_short | Genome Sequencing of Hericium coralloides by a Combination of PacBio RS II and Next-Generation Sequencing Platforms |
| title_sort | genome sequencing of hericium coralloides by a combination of pacbio rs ii and next generation sequencing platforms |
| url | http://dx.doi.org/10.1155/2022/4017654 |
| work_keys_str_mv | AT caixiazhang genomesequencingofhericiumcoralloidesbyacombinationofpacbiorsiiandnextgenerationsequencingplatforms AT lijunxu genomesequencingofhericiumcoralloidesbyacombinationofpacbiorsiiandnextgenerationsequencingplatforms AT jianli genomesequencingofhericiumcoralloidesbyacombinationofpacbiorsiiandnextgenerationsequencingplatforms AT jiansongchen genomesequencingofhericiumcoralloidesbyacombinationofpacbiorsiiandnextgenerationsequencingplatforms AT manjunyang genomesequencingofhericiumcoralloidesbyacombinationofpacbiorsiiandnextgenerationsequencingplatforms |