The Chromosome-Level Genome of <i>Elaeagnus moorcroftii</i> Wall., an Economically and Ecologically Important Tree Species in Drylands
<i>Elaeagnus moorcroftii</i> Wall. (Elaeagnaceae) is an important tree species naturally growing in arid Northwest China that has great economic and ecological values in drylands. In this study, we de novo assembled a chromosome-level genome for <i>E. moorcroftii</i> by using...
| Main Authors: | , , , , , , |
|---|---|
| Format: | Article |
| Language: | English |
| Published: |
MDPI AG
2022-06-01
|
| Series: | Diversity |
| Subjects: | |
| Online Access: | https://www.mdpi.com/1424-2818/14/6/468 |
| _version_ | 1797488215828987904 |
|---|---|
| author | Xinxing Fu Jingjing Wu Xiaohui Ma Kunpeng Li Hui Zhang Shengdan Wu Kun Sun |
| author_facet | Xinxing Fu Jingjing Wu Xiaohui Ma Kunpeng Li Hui Zhang Shengdan Wu Kun Sun |
| author_sort | Xinxing Fu |
| collection | DOAJ |
| description | <i>Elaeagnus moorcroftii</i> Wall. (Elaeagnaceae) is an important tree species naturally growing in arid Northwest China that has great economic and ecological values in drylands. In this study, we de novo assembled a chromosome-level genome for <i>E. moorcroftii</i> by using PacBio’s high-fidelity (HiFi) sequencing and Hi-C-assisted assembly technology. The assembled genome size was 529.56 Mb, of which 94.56% was anchored to 14 pseudochromosomes with a contig N50 up to 28.21 Mb. In total, 29,243 protein-coding genes were annotated, and 98.5% of the Benchmarking Universal Single-Copy Orthologs (BUSCOs) were captured in the genome. Evolutionary genomic analysis showed that <i>E. moorcroftii</i> split with <i>Elaeagnus mollis</i> 9.38 million years ago (Ma), and contrasted evolutionary trajectories of gene family expansion and contraction were observed for these two closely related species. Furthermore, we identified two successive whole genome duplication (WGD) events occurred in the genome of <i>E. moorcroftii</i>, in addition to the ancient <i>gamma</i> hexaploidization event shared by core eudicots. Together, the chromosome-level genome assembly for <i>E. moorcroftii</i> decoded here provides valuable genomic information for the further genetic improvement and molecular breeding of this indigenous species in drylands. |
| first_indexed | 2024-03-09T23:58:54Z |
| format | Article |
| id | doaj.art-eae419fd741b488a9bfeaea227ba6f20 |
| institution | Directory Open Access Journal |
| issn | 1424-2818 |
| language | English |
| last_indexed | 2024-03-09T23:58:54Z |
| publishDate | 2022-06-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | Diversity |
| spelling | doaj.art-eae419fd741b488a9bfeaea227ba6f202023-11-23T16:20:35ZengMDPI AGDiversity1424-28182022-06-0114646810.3390/d14060468The Chromosome-Level Genome of <i>Elaeagnus moorcroftii</i> Wall., an Economically and Ecologically Important Tree Species in DrylandsXinxing Fu0Jingjing Wu1Xiaohui Ma2Kunpeng Li3Hui Zhang4Shengdan Wu5Kun Sun6College of Life Sciences, Northwest Normal University, Lanzhou 730070, ChinaState Key Laboratory of Grassland Agro-Ecosystems, College of Ecology, Lanzhou University, Lanzhou 730000, ChinaState Key Laboratory of Grassland Agro-Ecosystems, College of Ecology, Lanzhou University, Lanzhou 730000, ChinaState Key Laboratory of Systematic and Evolutionary Botany, Institute of Botany, Chinese Academy of Sciences, Beijing 100093, ChinaCollege of Life Sciences, Northwest Normal University, Lanzhou 730070, ChinaState Key Laboratory of Grassland Agro-Ecosystems, College of Ecology, Lanzhou University, Lanzhou 730000, ChinaCollege of Life Sciences, Northwest Normal University, Lanzhou 730070, China<i>Elaeagnus moorcroftii</i> Wall. (Elaeagnaceae) is an important tree species naturally growing in arid Northwest China that has great economic and ecological values in drylands. In this study, we de novo assembled a chromosome-level genome for <i>E. moorcroftii</i> by using PacBio’s high-fidelity (HiFi) sequencing and Hi-C-assisted assembly technology. The assembled genome size was 529.56 Mb, of which 94.56% was anchored to 14 pseudochromosomes with a contig N50 up to 28.21 Mb. In total, 29,243 protein-coding genes were annotated, and 98.5% of the Benchmarking Universal Single-Copy Orthologs (BUSCOs) were captured in the genome. Evolutionary genomic analysis showed that <i>E. moorcroftii</i> split with <i>Elaeagnus mollis</i> 9.38 million years ago (Ma), and contrasted evolutionary trajectories of gene family expansion and contraction were observed for these two closely related species. Furthermore, we identified two successive whole genome duplication (WGD) events occurred in the genome of <i>E. moorcroftii</i>, in addition to the ancient <i>gamma</i> hexaploidization event shared by core eudicots. Together, the chromosome-level genome assembly for <i>E. moorcroftii</i> decoded here provides valuable genomic information for the further genetic improvement and molecular breeding of this indigenous species in drylands.https://www.mdpi.com/1424-2818/14/6/468<i>Elaeagnus moorcroftii</i> Wall.PacBio’s high-fidelity sequencingHi-C-assisted assemblywhole genome duplicationxerophytedrylands |
| spellingShingle | Xinxing Fu Jingjing Wu Xiaohui Ma Kunpeng Li Hui Zhang Shengdan Wu Kun Sun The Chromosome-Level Genome of <i>Elaeagnus moorcroftii</i> Wall., an Economically and Ecologically Important Tree Species in Drylands Diversity <i>Elaeagnus moorcroftii</i> Wall. PacBio’s high-fidelity sequencing Hi-C-assisted assembly whole genome duplication xerophyte drylands |
| title | The Chromosome-Level Genome of <i>Elaeagnus moorcroftii</i> Wall., an Economically and Ecologically Important Tree Species in Drylands |
| title_full | The Chromosome-Level Genome of <i>Elaeagnus moorcroftii</i> Wall., an Economically and Ecologically Important Tree Species in Drylands |
| title_fullStr | The Chromosome-Level Genome of <i>Elaeagnus moorcroftii</i> Wall., an Economically and Ecologically Important Tree Species in Drylands |
| title_full_unstemmed | The Chromosome-Level Genome of <i>Elaeagnus moorcroftii</i> Wall., an Economically and Ecologically Important Tree Species in Drylands |
| title_short | The Chromosome-Level Genome of <i>Elaeagnus moorcroftii</i> Wall., an Economically and Ecologically Important Tree Species in Drylands |
| title_sort | chromosome level genome of i elaeagnus moorcroftii i wall an economically and ecologically important tree species in drylands |
| topic | <i>Elaeagnus moorcroftii</i> Wall. PacBio’s high-fidelity sequencing Hi-C-assisted assembly whole genome duplication xerophyte drylands |
| url | https://www.mdpi.com/1424-2818/14/6/468 |
| work_keys_str_mv | AT xinxingfu thechromosomelevelgenomeofielaeagnusmoorcroftiiiwallaneconomicallyandecologicallyimportanttreespeciesindrylands AT jingjingwu thechromosomelevelgenomeofielaeagnusmoorcroftiiiwallaneconomicallyandecologicallyimportanttreespeciesindrylands AT xiaohuima thechromosomelevelgenomeofielaeagnusmoorcroftiiiwallaneconomicallyandecologicallyimportanttreespeciesindrylands AT kunpengli thechromosomelevelgenomeofielaeagnusmoorcroftiiiwallaneconomicallyandecologicallyimportanttreespeciesindrylands AT huizhang thechromosomelevelgenomeofielaeagnusmoorcroftiiiwallaneconomicallyandecologicallyimportanttreespeciesindrylands AT shengdanwu thechromosomelevelgenomeofielaeagnusmoorcroftiiiwallaneconomicallyandecologicallyimportanttreespeciesindrylands AT kunsun thechromosomelevelgenomeofielaeagnusmoorcroftiiiwallaneconomicallyandecologicallyimportanttreespeciesindrylands AT xinxingfu chromosomelevelgenomeofielaeagnusmoorcroftiiiwallaneconomicallyandecologicallyimportanttreespeciesindrylands AT jingjingwu chromosomelevelgenomeofielaeagnusmoorcroftiiiwallaneconomicallyandecologicallyimportanttreespeciesindrylands AT xiaohuima chromosomelevelgenomeofielaeagnusmoorcroftiiiwallaneconomicallyandecologicallyimportanttreespeciesindrylands AT kunpengli chromosomelevelgenomeofielaeagnusmoorcroftiiiwallaneconomicallyandecologicallyimportanttreespeciesindrylands AT huizhang chromosomelevelgenomeofielaeagnusmoorcroftiiiwallaneconomicallyandecologicallyimportanttreespeciesindrylands AT shengdanwu chromosomelevelgenomeofielaeagnusmoorcroftiiiwallaneconomicallyandecologicallyimportanttreespeciesindrylands AT kunsun chromosomelevelgenomeofielaeagnusmoorcroftiiiwallaneconomicallyandecologicallyimportanttreespeciesindrylands |