A genome and single-nucleus cerebral cortex transcriptome atlas of the short-finned pilot whale Globicephala macrorhynchus

Research output: Contribution to journal › Journal article › Research › peer-review

Standard

A genome and single-nucleus cerebral cortex transcriptome atlas of the short-finned pilot whale Globicephala macrorhynchus. / Kang, Hui; Liu, Qun; Seim, Inge; Zhang, Wenwei; Li, Hanbo; Gao, Haiyu; Lin, Wenzhi; Lin, Mingli; Zhang, Peijun; Zhang, Yaolei; Gao, Haoyang; Wang, Yang; Qin, Yating; Liu, Mingming; Dong, Lijun; Yang, Zixin; Zhang, Yingying; Han, Lei; Fan, Guangyi; Li, Songhai.

In: Molecular Ecology Resources, Vol. 23, No. 5, 2023.

Research output: Contribution to journal › Journal article › Research › peer-review

Harvard

Kang, H, Liu, Q, Seim, I, Zhang, W, Li, H, Gao, H, Lin, W, Lin, M, Zhang, P, Zhang, Y, Gao, H, Wang, Y, Qin, Y, Liu, M, Dong, L, Yang, Z, Zhang, Y, Han, L, Fan, G & Li, S 2023, 'A genome and single-nucleus cerebral cortex transcriptome atlas of the short-finned pilot whale Globicephala macrorhynchus', Molecular Ecology Resources, vol. 23, no. 5. https://doi.org/10.1111/1755-0998.13775

APA

Kang, H., Liu, Q., Seim, I., Zhang, W., Li, H., Gao, H., Lin, W., Lin, M., Zhang, P., Zhang, Y., Gao, H., Wang, Y., Qin, Y., Liu, M., Dong, L., Yang, Z., Zhang, Y., Han, L., Fan, G., & Li, S. (2023). A genome and single-nucleus cerebral cortex transcriptome atlas of the short-finned pilot whale Globicephala macrorhynchus. Molecular Ecology Resources, 23(5). https://doi.org/10.1111/1755-0998.13775

Vancouver

Kang H, Liu Q, Seim I, Zhang W, Li H, Gao H et al. A genome and single-nucleus cerebral cortex transcriptome atlas of the short-finned pilot whale Globicephala macrorhynchus. Molecular Ecology Resources. 2023;23(5). https://doi.org/10.1111/1755-0998.13775

Author

Kang, Hui ; Liu, Qun ; Seim, Inge ; Zhang, Wenwei ; Li, Hanbo ; Gao, Haiyu ; Lin, Wenzhi ; Lin, Mingli ; Zhang, Peijun ; Zhang, Yaolei ; Gao, Haoyang ; Wang, Yang ; Qin, Yating ; Liu, Mingming ; Dong, Lijun ; Yang, Zixin ; Zhang, Yingying ; Han, Lei ; Fan, Guangyi ; Li, Songhai. / A genome and single-nucleus cerebral cortex transcriptome atlas of the short-finned pilot whale Globicephala macrorhynchus. In: Molecular Ecology Resources. 2023 ; Vol. 23, No. 5.

Bibtex

@article{db669cbcd9d74e01a48f20c276dd5af5,
title = "A genome and single-nucleus cerebral cortex transcriptome atlas of the short-finned pilot whale Globicephala macrorhynchus",
abstract = "Cetaceans (dolphins, whales, and porpoises) have large and anatomically sophisticated brains. To expand our understanding of the cellular makeup of cetacean brains and the similarities and divergence between the brains of cetaceans and terrestrial mammals, we report a short-finned pilot whale (Globicephala macrorhynchus) single-nucleus transcriptome atlas. To achieve this goal, we assembled a chromosome-scale reference genome spanning 2.25 Gb on 22 chromosomes and profiled the gene expression of five major anatomical cortical regions of the short-finned pilot whale by single-nucleus RNA-sequencing (snRNA-seq). We identified six major cell lineages in the cerebral cortex (excitatory neurons, inhibitory neurons, oligodendrocytes, oligodendrocyte precursor cells, astrocytes, and endothelial cells), eight molecularly distinct subclusters of excitatory neurons, and four subclusters of inhibitory neurons. Finally, a comparison of snRNA-seq data from the short-finned pilot whale, human, and rhesus macaque revealed a broadly conserved cellular makeup of brain cell types. Our study provides genomic resources and molecular insights into cetacean brain evolution.",
keywords = "cerebral cortex, cetacean, cross-species analysis, genome assembly, Globicephala macrorhynchus, single-nucleus RNA-sequencing",
author = "Hui Kang and Qun Liu and Inge Seim and Wenwei Zhang and Hanbo Li and Haiyu Gao and Wenzhi Lin and Mingli Lin and Peijun Zhang and Yaolei Zhang and Haoyang Gao and Yang Wang and Yating Qin and Mingming Liu and Lijun Dong and Zixin Yang and Yingying Zhang and Lei Han and Guangyi Fan and Songhai Li",
note = "Publisher Copyright: {\textcopyright} 2023 John Wiley & Sons Ltd.",
year = "2023",
doi = "10.1111/1755-0998.13775",
language = "English",
volume = "23",
journal = "Molecular Ecology",
issn = "0962-1083",
publisher = "Wiley-Blackwell",
number = "5",

}

RIS

TY - JOUR

T1 - A genome and single-nucleus cerebral cortex transcriptome atlas of the short-finned pilot whale Globicephala macrorhynchus

AU - Kang, Hui

AU - Liu, Qun

AU - Seim, Inge

AU - Zhang, Wenwei

AU - Li, Hanbo

AU - Gao, Haiyu

AU - Lin, Wenzhi

AU - Lin, Mingli

AU - Zhang, Peijun

AU - Zhang, Yaolei

AU - Gao, Haoyang

AU - Wang, Yang

AU - Qin, Yating

AU - Liu, Mingming

AU - Dong, Lijun

AU - Yang, Zixin

AU - Zhang, Yingying

AU - Han, Lei

AU - Fan, Guangyi

AU - Li, Songhai

N1 - Publisher Copyright: © 2023 John Wiley & Sons Ltd.

PY - 2023

Y1 - 2023

N2 - Cetaceans (dolphins, whales, and porpoises) have large and anatomically sophisticated brains. To expand our understanding of the cellular makeup of cetacean brains and the similarities and divergence between the brains of cetaceans and terrestrial mammals, we report a short-finned pilot whale (Globicephala macrorhynchus) single-nucleus transcriptome atlas. To achieve this goal, we assembled a chromosome-scale reference genome spanning 2.25 Gb on 22 chromosomes and profiled the gene expression of five major anatomical cortical regions of the short-finned pilot whale by single-nucleus RNA-sequencing (snRNA-seq). We identified six major cell lineages in the cerebral cortex (excitatory neurons, inhibitory neurons, oligodendrocytes, oligodendrocyte precursor cells, astrocytes, and endothelial cells), eight molecularly distinct subclusters of excitatory neurons, and four subclusters of inhibitory neurons. Finally, a comparison of snRNA-seq data from the short-finned pilot whale, human, and rhesus macaque revealed a broadly conserved cellular makeup of brain cell types. Our study provides genomic resources and molecular insights into cetacean brain evolution.

AB - Cetaceans (dolphins, whales, and porpoises) have large and anatomically sophisticated brains. To expand our understanding of the cellular makeup of cetacean brains and the similarities and divergence between the brains of cetaceans and terrestrial mammals, we report a short-finned pilot whale (Globicephala macrorhynchus) single-nucleus transcriptome atlas. To achieve this goal, we assembled a chromosome-scale reference genome spanning 2.25 Gb on 22 chromosomes and profiled the gene expression of five major anatomical cortical regions of the short-finned pilot whale by single-nucleus RNA-sequencing (snRNA-seq). We identified six major cell lineages in the cerebral cortex (excitatory neurons, inhibitory neurons, oligodendrocytes, oligodendrocyte precursor cells, astrocytes, and endothelial cells), eight molecularly distinct subclusters of excitatory neurons, and four subclusters of inhibitory neurons. Finally, a comparison of snRNA-seq data from the short-finned pilot whale, human, and rhesus macaque revealed a broadly conserved cellular makeup of brain cell types. Our study provides genomic resources and molecular insights into cetacean brain evolution.

KW - cerebral cortex

KW - cetacean

KW - cross-species analysis

KW - genome assembly

KW - Globicephala macrorhynchus

KW - single-nucleus RNA-sequencing

U2 - 10.1111/1755-0998.13775

DO - 10.1111/1755-0998.13775

M3 - Journal article

C2 - 36826393

AN - SCOPUS:85150494746

VL - 23

JO - Molecular Ecology

JF - Molecular Ecology

SN - 0962-1083

IS - 5

ER -

ID: 341259686