Whole-Genome Sequences of 13 Chinese Indigenous Pinewood Nematodes, Bursaphelenchus xylophilus
Abstract
:1. Introduction
2. Results
2.1. SNP Distribution in the Chinese Indigenous Pinewood Nematodes
IDs | Species | Host Tree | Insect Vector | Climate Conditions | Geographic Region (District, Province) | No. of Samples |
---|---|---|---|---|---|---|
A1 | Bursaphelenchus xylophilus | Pinus sylvestris var. mongholica | Monochamus | Cold temperate | Hunnan, Shenyang, Liaoning | 1 |
A2 | Bursaphelenchus xylophilus | Pinus tabuliformis | Monochamus | Cold temperate | Qingyuan, Fushun, Liaoning | 1 |
A3 | Bursaphelenchus xylophilus | Pinus tabuliformis | Monochamus | Cold temperate | Dongzhou, Fushun, Liaoning | 1 |
A4 | Bursaphelenchus xylophilus | Pinus tabuliformis | Monochamus | Cold temperate | Xihu, Benxi, Liaoning | 1 |
A5 | Bursaphelenchus xylophilus | Pinus tabuliformis | Monochamus | Cold temperate | Mingshan, Benxi, Liaoning | 1 |
A6 | Bursaphelenchus xylophilus | Pinus koraiensis | Monochamus | Cold temperate | Kaiyuan, Tieling, Liaoning | 1 |
A7 | Bursaphelenchus xylophilus | Pinus tabuliformis | Monochamus | Cold temperate | Tieling, Tieling, Liaoning | 1 |
A8 | Bursaphelenchus xylophilus | Pinus tabuliformis | Monochamus | Cold temperate | Dengta, Liaoning, Liaoning | 1 |
A9 | Bursaphelenchus xylophilus | Pinus tabuliformis | Monochamus | Cold temperate | Liaoyang, Liaoning | 1 |
A10 | Bursaphelenchus xylophilus | Pinus koraiensis | Monochamus | Cold temperate | Fengcheng, Dandong, Liaoning | 1 |
A11 | Bursaphelenchus xylophilus | Pinus thunbergii | Monochamus | Cold temperate | Changhai, Dalian, Liaoning | 1 |
B1 | Bursaphelenchus xylophilus | Pinus massoniana | Monochamus | Subtropic | Yingtan, Jianxi | 1 |
B2 | Bursaphelenchus xylophilus | Pinus massoniana | Monochamus | Subtropic | Anshan, Anhui | 1 |
Total | 13 |
2.2. Genetic Relationship among Chinese Indigenous Pinewood Nematodes
2.3. Annotation of Genetic Variants and Associated Genes
2.4. Specific Genetic Variants in Cold-Temperate Regions
3. Discussion
4. Materials and Methods
4.1. Sampling
4.2. Genomic DNA Isolation, Sequence Library Preparation, and Quality Control
4.3. Short-Read Preprocessing, Variant Calling, and Filtering
4.4. Population Structure Analysis with Principal Component Analysis and Phylogenetic Tree
4.5. Annotation Analysis and Functional Enrichment Analyses
4.6. Annotation Analysis of Specific Genetic Variants in Cold-Temperate Regions
5. Conclusions
Supplementary Materials
Author Contributions
Funding
Institutional Review Board Statement
Informed Consent Statement
Data Availability Statement
Conflicts of Interest
References
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Gene Symbol | Description | Annotation | Variant Type |
---|---|---|---|
Bm1-29045 | TKR78190.1 hypothetical protein | Genetic information processing; Translation | Stop gained, frame shifted |
F59C6.8 | TKR58295.1 hypothetical protein | − * | Frameshift variant |
Tag-151 | KAE9554954.1 hypothetical protein | − | Frameshift variant |
Vha-12 | KHJ82218.1 hypothetical protein | Metabolism; Environmental information Processing; cellular processes | Frameshift variant |
At1g67520 | VDN83815.1 unnamed protein product | − | Frameshift variant |
Ugt-58 | KAE9553687.1 hypothetical protein | Metabolism | Frameshift variant |
OatA | XP_003093275.1 hypothetical protein | − | Frameshift variant |
Lys-3 | XP_024506972.1 Glycoside hydrolase | − | Frameshift variant |
SETMAR | AAZ67092.1 transposase | Metabolism | Frameshift variant |
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Dong, B.; Wu, H.; Li, D.; Luo, Z.; He, S.; Hao, X.; Gao, J. Whole-Genome Sequences of 13 Chinese Indigenous Pinewood Nematodes, Bursaphelenchus xylophilus. Int. J. Mol. Sci. 2024, 25, 10492. https://doi.org/10.3390/ijms251910492
Dong B, Wu H, Li D, Luo Z, He S, Hao X, Gao J. Whole-Genome Sequences of 13 Chinese Indigenous Pinewood Nematodes, Bursaphelenchus xylophilus. International Journal of Molecular Sciences. 2024; 25(19):10492. https://doi.org/10.3390/ijms251910492
Chicago/Turabian StyleDong, Bo, Hao Wu, Debin Li, Zaiquan Luo, Shan He, Xin Hao, and Junxin Gao. 2024. "Whole-Genome Sequences of 13 Chinese Indigenous Pinewood Nematodes, Bursaphelenchus xylophilus" International Journal of Molecular Sciences 25, no. 19: 10492. https://doi.org/10.3390/ijms251910492