Chromosome-scale assembly and whole-genome sequencing of 266 giant panda roundworms provide insights into their evolution, adaptation and potential drug targets

Research output: Contribution to journalJournal articlepeer-review

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Chromosome-scale assembly and whole-genome sequencing of 266 giant panda roundworms provide insights into their evolution, adaptation and potential drug targets. / Han, Lei; Lan, Tianming; Li, Desheng; Li, Haimeng; Deng, Linhua; Peng, Zhiwei; He, Shaowen; Zhou, Yanqiang; Han, Ruobing; Li, Lingling; Lu, Yaxian; Lu, Haorong; Wang, Qing; Yang, Shangchen; Zhu, Yixin; Huang, Yunting; Cheng, Xiaofang; Yu, Jieyao; Wang, Yulong; Sun, Heting; Chai, Hongliang; Yang, Huanming; Xu, Xun; Lisby, Michael; Liu, Quan; Kristiansen, Karsten; Liu, Huan; Hou, Zhijun.

In: Molecular Ecology Resources, Vol. 22, No. 2, 2022, p. 768-785.

Research output: Contribution to journalJournal articlepeer-review

Harvard

Han, L, Lan, T, Li, D, Li, H, Deng, L, Peng, Z, He, S, Zhou, Y, Han, R, Li, L, Lu, Y, Lu, H, Wang, Q, Yang, S, Zhu, Y, Huang, Y, Cheng, X, Yu, J, Wang, Y, Sun, H, Chai, H, Yang, H, Xu, X, Lisby, M, Liu, Q, Kristiansen, K, Liu, H & Hou, Z 2022, 'Chromosome-scale assembly and whole-genome sequencing of 266 giant panda roundworms provide insights into their evolution, adaptation and potential drug targets', Molecular Ecology Resources, vol. 22, no. 2, pp. 768-785. https://doi.org/10.1111/1755-0998.13504

APA

Han, L., Lan, T., Li, D., Li, H., Deng, L., Peng, Z., He, S., Zhou, Y., Han, R., Li, L., Lu, Y., Lu, H., Wang, Q., Yang, S., Zhu, Y., Huang, Y., Cheng, X., Yu, J., Wang, Y., ... Hou, Z. (2022). Chromosome-scale assembly and whole-genome sequencing of 266 giant panda roundworms provide insights into their evolution, adaptation and potential drug targets. Molecular Ecology Resources, 22(2), 768-785. https://doi.org/10.1111/1755-0998.13504

Vancouver

Han L, Lan T, Li D, Li H, Deng L, Peng Z et al. Chromosome-scale assembly and whole-genome sequencing of 266 giant panda roundworms provide insights into their evolution, adaptation and potential drug targets. Molecular Ecology Resources. 2022;22(2):768-785. https://doi.org/10.1111/1755-0998.13504

Author

Han, Lei ; Lan, Tianming ; Li, Desheng ; Li, Haimeng ; Deng, Linhua ; Peng, Zhiwei ; He, Shaowen ; Zhou, Yanqiang ; Han, Ruobing ; Li, Lingling ; Lu, Yaxian ; Lu, Haorong ; Wang, Qing ; Yang, Shangchen ; Zhu, Yixin ; Huang, Yunting ; Cheng, Xiaofang ; Yu, Jieyao ; Wang, Yulong ; Sun, Heting ; Chai, Hongliang ; Yang, Huanming ; Xu, Xun ; Lisby, Michael ; Liu, Quan ; Kristiansen, Karsten ; Liu, Huan ; Hou, Zhijun. / Chromosome-scale assembly and whole-genome sequencing of 266 giant panda roundworms provide insights into their evolution, adaptation and potential drug targets. In: Molecular Ecology Resources. 2022 ; Vol. 22, No. 2. pp. 768-785.

Bibtex

@article{78085093fb224b4682396c851fc94a2e,
title = "Chromosome-scale assembly and whole-genome sequencing of 266 giant panda roundworms provide insights into their evolution, adaptation and potential drug targets",
abstract = "Helminth diseases have long been a threat to the health of humans and animals. Roundworms are important organisms for studying parasitic mechanisms, disease transmission and prevention. The study of parasites in the giant panda is of importance for understanding how roundworms adapt to the host. Here, we report a high-quality chromosome-scale genome of Baylisascaris schroederi with a genome size of 253.60 Mb and 19,262 predicted protein-coding genes. We found that gene families related to epidermal chitin synthesis and environmental information processes in the roundworm genome have expanded significantly. Furthermore, we demonstrated unique genes involved in essential amino acid metabolism in the B. schroederi genome, inferred to be essential for the adaptation to the giant panda-specific diet. In addition, under different deworming pressures, we found that four resistance-related genes (glc-1, nrf-6, bre-4 and ced-7) were under strong positive selection in a captive population. Finally, 23 known drug targets and 47 potential drug target proteins were identified. The genome provides a unique reference for inferring the early evolution of roundworms and their adaptation to the host. Population genetic analysis and drug sensitivity prediction provide insights revealing the impact of deworming history on population genetic structure of importance for disease prevention.",
keywords = "adaptation, anthelmintics, Baylisascaris schroederi, genetic diversity, roundworms",
author = "Lei Han and Tianming Lan and Desheng Li and Haimeng Li and Linhua Deng and Zhiwei Peng and Shaowen He and Yanqiang Zhou and Ruobing Han and Lingling Li and Yaxian Lu and Haorong Lu and Qing Wang and Shangchen Yang and Yixin Zhu and Yunting Huang and Xiaofang Cheng and Jieyao Yu and Yulong Wang and Heting Sun and Hongliang Chai and Huanming Yang and Xun Xu and Michael Lisby and Quan Liu and Karsten Kristiansen and Huan Liu and Zhijun Hou",
note = "Publisher Copyright: {\textcopyright} 2021 The Authors. Molecular Ecology Resources published by John Wiley & Sons Ltd.",
year = "2022",
doi = "10.1111/1755-0998.13504",
language = "English",
volume = "22",
pages = "768--785",
journal = "Molecular Ecology",
issn = "0962-1083",
publisher = "Wiley-Blackwell",
number = "2",

}

RIS

TY - JOUR

T1 - Chromosome-scale assembly and whole-genome sequencing of 266 giant panda roundworms provide insights into their evolution, adaptation and potential drug targets

AU - Han, Lei

AU - Lan, Tianming

AU - Li, Desheng

AU - Li, Haimeng

AU - Deng, Linhua

AU - Peng, Zhiwei

AU - He, Shaowen

AU - Zhou, Yanqiang

AU - Han, Ruobing

AU - Li, Lingling

AU - Lu, Yaxian

AU - Lu, Haorong

AU - Wang, Qing

AU - Yang, Shangchen

AU - Zhu, Yixin

AU - Huang, Yunting

AU - Cheng, Xiaofang

AU - Yu, Jieyao

AU - Wang, Yulong

AU - Sun, Heting

AU - Chai, Hongliang

AU - Yang, Huanming

AU - Xu, Xun

AU - Lisby, Michael

AU - Liu, Quan

AU - Kristiansen, Karsten

AU - Liu, Huan

AU - Hou, Zhijun

N1 - Publisher Copyright: © 2021 The Authors. Molecular Ecology Resources published by John Wiley & Sons Ltd.

PY - 2022

Y1 - 2022

N2 - Helminth diseases have long been a threat to the health of humans and animals. Roundworms are important organisms for studying parasitic mechanisms, disease transmission and prevention. The study of parasites in the giant panda is of importance for understanding how roundworms adapt to the host. Here, we report a high-quality chromosome-scale genome of Baylisascaris schroederi with a genome size of 253.60 Mb and 19,262 predicted protein-coding genes. We found that gene families related to epidermal chitin synthesis and environmental information processes in the roundworm genome have expanded significantly. Furthermore, we demonstrated unique genes involved in essential amino acid metabolism in the B. schroederi genome, inferred to be essential for the adaptation to the giant panda-specific diet. In addition, under different deworming pressures, we found that four resistance-related genes (glc-1, nrf-6, bre-4 and ced-7) were under strong positive selection in a captive population. Finally, 23 known drug targets and 47 potential drug target proteins were identified. The genome provides a unique reference for inferring the early evolution of roundworms and their adaptation to the host. Population genetic analysis and drug sensitivity prediction provide insights revealing the impact of deworming history on population genetic structure of importance for disease prevention.

AB - Helminth diseases have long been a threat to the health of humans and animals. Roundworms are important organisms for studying parasitic mechanisms, disease transmission and prevention. The study of parasites in the giant panda is of importance for understanding how roundworms adapt to the host. Here, we report a high-quality chromosome-scale genome of Baylisascaris schroederi with a genome size of 253.60 Mb and 19,262 predicted protein-coding genes. We found that gene families related to epidermal chitin synthesis and environmental information processes in the roundworm genome have expanded significantly. Furthermore, we demonstrated unique genes involved in essential amino acid metabolism in the B. schroederi genome, inferred to be essential for the adaptation to the giant panda-specific diet. In addition, under different deworming pressures, we found that four resistance-related genes (glc-1, nrf-6, bre-4 and ced-7) were under strong positive selection in a captive population. Finally, 23 known drug targets and 47 potential drug target proteins were identified. The genome provides a unique reference for inferring the early evolution of roundworms and their adaptation to the host. Population genetic analysis and drug sensitivity prediction provide insights revealing the impact of deworming history on population genetic structure of importance for disease prevention.

KW - adaptation

KW - anthelmintics

KW - Baylisascaris schroederi

KW - genetic diversity

KW - roundworms

U2 - 10.1111/1755-0998.13504

DO - 10.1111/1755-0998.13504

M3 - Journal article

C2 - 34549895

AN - SCOPUS:85118228843

VL - 22

SP - 768

EP - 785

JO - Molecular Ecology

JF - Molecular Ecology

SN - 0962-1083

IS - 2

ER -

ID: 285241070