The common marmoset genome provides insight into primate biology and evolution

Kim C. Worley, Wesley C. Warren, Jeffrey Rogers, Devin Locke, Donna M. Muzny, Elaine R. Mardis, George M. Weinstock, Suzette D. Tardif, Kjersti M. Aagaard, Nicoletta Archidiacono, Nirmala Arul Rayan, Mark A. Batzer, Kathryn Beal, Brona Brejova, Oronzo Capozzi, Saverio B. Capuano, Claudio Casola, Mimi M. Chandrabose, Andrew Cree, Marvin Diep DaoPieter J. De Jong, Ricardo Cruz-Herrera del Rosario, Kim D. Delehaunty, Huyen H. Dinh, Evan E. Eichler, Stephen Fitzgerald, Paul Flicek, Catherine C. Fontenot, R. Gerald Fowler, Catrina Fronick, Lucinda A. Fulton, Robert S. Fulton, Ramatu Ayiesha Gabisi, Daniel Gerlach, Tina A. Graves, Preethi H. Gunaratne, Matthew W. Hahn, David Haig, Yi Han, R. Alan Harris, Javier Herrero, LaDeana W. Hillier, Robert Hubley, Jennifer F. Hughes, Jennifer Hume, Shalini N. Jhangiani, Lynn B. Jorde, Vandita Joshi, Emre Karakor, Miriam K. Konkel, Carolin Kosiol, Christie LKovar, Evgenia V. Kriventseva, Sandra L. Lee, Lora R. Lewis, Yih Shin Liu, John Lopez, Carlos Lopez-Otin, Belen Lorente-Galdos, Keith G. Mansfield, Tomas Marques-Bonet, Patrick Minx, Doriana Misceo, J. Scott Moncrieff, Margaret B. Morgan, Lynne V. Nazareth, Irene Newsham, Ngoc Bich Nguyen, Geoffrey O. Okwuonu, Shyam Prabhakar, Lora Perales, Ling Ling Pu, Xose S. Puente, Victor Quesada, Megan C. Ranck, Brian J. Raney, Muthuswamy Raveendran, David Rio Deiros, Mariano Rocchi, David Rodriguez, Corinna Ross, Magali Ruffier, San Juana Ruiz, Saba Sajjadian, Jireh Santibanez, Daniel R. Schrider, Steve Searle, Helen Skaletsky, Benjamin Soibam, Arian F A Smit, Jayantha B. Tennakoon, Lubomir Tomaska, Brygg Ullmer, Charles E. Vejnar, Mario Ventura, Albert J. Vilella, Tomas Vinar, Jan Hinnerk Vogel, Jerilyn A. Walker, Qing Wang, Crystal M. Warner, Derek E. Wildman, David J. Witherspoon, Rita A. Wright, Yuanqing Wu, Weimin Xiao, Jinchuan Xing, Evgeny M. Zdobnov, Baoli Zhu, Richard A. Gibbs, Richard K. Wilson

Research output: Contribution to journalArticle

107 Citations (Scopus)

Abstract

We report the whole-genome sequence of the common marmoset (Callithrix jacchus). The 2.26-Gb genome of a female marmoset was assembled using Sanger read data (6×) and a whole-genome shotgun strategy. A first analysis has permitted comparison with the genomes of apes and Old World monkeys and the identification of specific features that might contribute to the unique biology of this diminutive primate, including genetic changes that may influence body size, frequent twinning and chimerism. We observed positive selection in growth hormone/insulin-like growth factor genes (growth pathways), respiratory complex I genes (metabolic pathways), and genes encoding immunobiological factors and proteases (reproductive and immunity pathways). In addition, both protein-coding and microRNA genes related to reproduction exhibited evidence of rapid sequence evolution. This genome sequence for a New World monkey enables increased power for comparative analyses among available primate genomes and facilitates biomedical research application.

Original languageEnglish (US)
Pages (from-to)850-857
Number of pages8
JournalNature Genetics
Volume46
Issue number8
DOIs
StatePublished - 2014

Fingerprint

Callithrix
Primates
Genome
Genes
Platyrrhini
Cercopithecidae
Electron Transport Complex I
Chimerism
Hominidae
Firearms
Body Size
Somatomedins
Metabolic Networks and Pathways
MicroRNAs
Growth Hormone
Reproduction
Biomedical Research
Immunity
Peptide Hydrolases
Growth

ASJC Scopus subject areas

  • Genetics
  • Medicine(all)

Cite this

Worley, K. C., Warren, W. C., Rogers, J., Locke, D., Muzny, D. M., Mardis, E. R., ... Wilson, R. K. (2014). The common marmoset genome provides insight into primate biology and evolution. Nature Genetics, 46(8), 850-857. https://doi.org/10.1038/ng.3042

The common marmoset genome provides insight into primate biology and evolution. / Worley, Kim C.; Warren, Wesley C.; Rogers, Jeffrey; Locke, Devin; Muzny, Donna M.; Mardis, Elaine R.; Weinstock, George M.; Tardif, Suzette D.; Aagaard, Kjersti M.; Archidiacono, Nicoletta; Arul Rayan, Nirmala; Batzer, Mark A.; Beal, Kathryn; Brejova, Brona; Capozzi, Oronzo; Capuano, Saverio B.; Casola, Claudio; Chandrabose, Mimi M.; Cree, Andrew; Diep Dao, Marvin; De Jong, Pieter J.; Cruz-Herrera del Rosario, Ricardo; Delehaunty, Kim D.; Dinh, Huyen H.; Eichler, Evan E.; Fitzgerald, Stephen; Flicek, Paul; Fontenot, Catherine C.; Fowler, R. Gerald; Fronick, Catrina; Fulton, Lucinda A.; Fulton, Robert S.; Gabisi, Ramatu Ayiesha; Gerlach, Daniel; Graves, Tina A.; Gunaratne, Preethi H.; Hahn, Matthew W.; Haig, David; Han, Yi; Harris, R. Alan; Herrero, Javier; Hillier, LaDeana W.; Hubley, Robert; Hughes, Jennifer F.; Hume, Jennifer; Jhangiani, Shalini N.; Jorde, Lynn B.; Joshi, Vandita; Karakor, Emre; Konkel, Miriam K.; Kosiol, Carolin; LKovar, Christie; Kriventseva, Evgenia V.; Lee, Sandra L.; Lewis, Lora R.; Liu, Yih Shin; Lopez, John; Lopez-Otin, Carlos; Lorente-Galdos, Belen; Mansfield, Keith G.; Marques-Bonet, Tomas; Minx, Patrick; Misceo, Doriana; Moncrieff, J. Scott; Morgan, Margaret B.; Nazareth, Lynne V.; Newsham, Irene; Nguyen, Ngoc Bich; Okwuonu, Geoffrey O.; Prabhakar, Shyam; Perales, Lora; Pu, Ling Ling; Puente, Xose S.; Quesada, Victor; Ranck, Megan C.; Raney, Brian J.; Raveendran, Muthuswamy; Deiros, David Rio; Rocchi, Mariano; Rodriguez, David; Ross, Corinna; Ruffier, Magali; Ruiz, San Juana; Sajjadian, Saba; Santibanez, Jireh; Schrider, Daniel R.; Searle, Steve; Skaletsky, Helen; Soibam, Benjamin; Smit, Arian F A; Tennakoon, Jayantha B.; Tomaska, Lubomir; Ullmer, Brygg; Vejnar, Charles E.; Ventura, Mario; Vilella, Albert J.; Vinar, Tomas; Vogel, Jan Hinnerk; Walker, Jerilyn A.; Wang, Qing; Warner, Crystal M.; Wildman, Derek E.; Witherspoon, David J.; Wright, Rita A.; Wu, Yuanqing; Xiao, Weimin; Xing, Jinchuan; Zdobnov, Evgeny M.; Zhu, Baoli; Gibbs, Richard A.; Wilson, Richard K.

In: Nature Genetics, Vol. 46, No. 8, 2014, p. 850-857.

Research output: Contribution to journalArticle

Worley, KC, Warren, WC, Rogers, J, Locke, D, Muzny, DM, Mardis, ER, Weinstock, GM, Tardif, SD, Aagaard, KM, Archidiacono, N, Arul Rayan, N, Batzer, MA, Beal, K, Brejova, B, Capozzi, O, Capuano, SB, Casola, C, Chandrabose, MM, Cree, A, Diep Dao, M, De Jong, PJ, Cruz-Herrera del Rosario, R, Delehaunty, KD, Dinh, HH, Eichler, EE, Fitzgerald, S, Flicek, P, Fontenot, CC, Fowler, RG, Fronick, C, Fulton, LA, Fulton, RS, Gabisi, RA, Gerlach, D, Graves, TA, Gunaratne, PH, Hahn, MW, Haig, D, Han, Y, Harris, RA, Herrero, J, Hillier, LW, Hubley, R, Hughes, JF, Hume, J, Jhangiani, SN, Jorde, LB, Joshi, V, Karakor, E, Konkel, MK, Kosiol, C, LKovar, C, Kriventseva, EV, Lee, SL, Lewis, LR, Liu, YS, Lopez, J, Lopez-Otin, C, Lorente-Galdos, B, Mansfield, KG, Marques-Bonet, T, Minx, P, Misceo, D, Moncrieff, JS, Morgan, MB, Nazareth, LV, Newsham, I, Nguyen, NB, Okwuonu, GO, Prabhakar, S, Perales, L, Pu, LL, Puente, XS, Quesada, V, Ranck, MC, Raney, BJ, Raveendran, M, Deiros, DR, Rocchi, M, Rodriguez, D, Ross, C, Ruffier, M, Ruiz, SJ, Sajjadian, S, Santibanez, J, Schrider, DR, Searle, S, Skaletsky, H, Soibam, B, Smit, AFA, Tennakoon, JB, Tomaska, L, Ullmer, B, Vejnar, CE, Ventura, M, Vilella, AJ, Vinar, T, Vogel, JH, Walker, JA, Wang, Q, Warner, CM, Wildman, DE, Witherspoon, DJ, Wright, RA, Wu, Y, Xiao, W, Xing, J, Zdobnov, EM, Zhu, B, Gibbs, RA & Wilson, RK 2014, 'The common marmoset genome provides insight into primate biology and evolution', Nature Genetics, vol. 46, no. 8, pp. 850-857. https://doi.org/10.1038/ng.3042
Worley KC, Warren WC, Rogers J, Locke D, Muzny DM, Mardis ER et al. The common marmoset genome provides insight into primate biology and evolution. Nature Genetics. 2014;46(8):850-857. https://doi.org/10.1038/ng.3042
Worley, Kim C. ; Warren, Wesley C. ; Rogers, Jeffrey ; Locke, Devin ; Muzny, Donna M. ; Mardis, Elaine R. ; Weinstock, George M. ; Tardif, Suzette D. ; Aagaard, Kjersti M. ; Archidiacono, Nicoletta ; Arul Rayan, Nirmala ; Batzer, Mark A. ; Beal, Kathryn ; Brejova, Brona ; Capozzi, Oronzo ; Capuano, Saverio B. ; Casola, Claudio ; Chandrabose, Mimi M. ; Cree, Andrew ; Diep Dao, Marvin ; De Jong, Pieter J. ; Cruz-Herrera del Rosario, Ricardo ; Delehaunty, Kim D. ; Dinh, Huyen H. ; Eichler, Evan E. ; Fitzgerald, Stephen ; Flicek, Paul ; Fontenot, Catherine C. ; Fowler, R. Gerald ; Fronick, Catrina ; Fulton, Lucinda A. ; Fulton, Robert S. ; Gabisi, Ramatu Ayiesha ; Gerlach, Daniel ; Graves, Tina A. ; Gunaratne, Preethi H. ; Hahn, Matthew W. ; Haig, David ; Han, Yi ; Harris, R. Alan ; Herrero, Javier ; Hillier, LaDeana W. ; Hubley, Robert ; Hughes, Jennifer F. ; Hume, Jennifer ; Jhangiani, Shalini N. ; Jorde, Lynn B. ; Joshi, Vandita ; Karakor, Emre ; Konkel, Miriam K. ; Kosiol, Carolin ; LKovar, Christie ; Kriventseva, Evgenia V. ; Lee, Sandra L. ; Lewis, Lora R. ; Liu, Yih Shin ; Lopez, John ; Lopez-Otin, Carlos ; Lorente-Galdos, Belen ; Mansfield, Keith G. ; Marques-Bonet, Tomas ; Minx, Patrick ; Misceo, Doriana ; Moncrieff, J. Scott ; Morgan, Margaret B. ; Nazareth, Lynne V. ; Newsham, Irene ; Nguyen, Ngoc Bich ; Okwuonu, Geoffrey O. ; Prabhakar, Shyam ; Perales, Lora ; Pu, Ling Ling ; Puente, Xose S. ; Quesada, Victor ; Ranck, Megan C. ; Raney, Brian J. ; Raveendran, Muthuswamy ; Deiros, David Rio ; Rocchi, Mariano ; Rodriguez, David ; Ross, Corinna ; Ruffier, Magali ; Ruiz, San Juana ; Sajjadian, Saba ; Santibanez, Jireh ; Schrider, Daniel R. ; Searle, Steve ; Skaletsky, Helen ; Soibam, Benjamin ; Smit, Arian F A ; Tennakoon, Jayantha B. ; Tomaska, Lubomir ; Ullmer, Brygg ; Vejnar, Charles E. ; Ventura, Mario ; Vilella, Albert J. ; Vinar, Tomas ; Vogel, Jan Hinnerk ; Walker, Jerilyn A. ; Wang, Qing ; Warner, Crystal M. ; Wildman, Derek E. ; Witherspoon, David J. ; Wright, Rita A. ; Wu, Yuanqing ; Xiao, Weimin ; Xing, Jinchuan ; Zdobnov, Evgeny M. ; Zhu, Baoli ; Gibbs, Richard A. ; Wilson, Richard K. / The common marmoset genome provides insight into primate biology and evolution. In: Nature Genetics. 2014 ; Vol. 46, No. 8. pp. 850-857.
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T1 - The common marmoset genome provides insight into primate biology and evolution

AU - Worley, Kim C.

AU - Warren, Wesley C.

AU - Rogers, Jeffrey

AU - Locke, Devin

AU - Muzny, Donna M.

AU - Mardis, Elaine R.

AU - Weinstock, George M.

AU - Tardif, Suzette D.

AU - Aagaard, Kjersti M.

AU - Archidiacono, Nicoletta

AU - Arul Rayan, Nirmala

AU - Batzer, Mark A.

AU - Beal, Kathryn

AU - Brejova, Brona

AU - Capozzi, Oronzo

AU - Capuano, Saverio B.

AU - Casola, Claudio

AU - Chandrabose, Mimi M.

AU - Cree, Andrew

AU - Diep Dao, Marvin

AU - De Jong, Pieter J.

AU - Cruz-Herrera del Rosario, Ricardo

AU - Delehaunty, Kim D.

AU - Dinh, Huyen H.

AU - Eichler, Evan E.

AU - Fitzgerald, Stephen

AU - Flicek, Paul

AU - Fontenot, Catherine C.

AU - Fowler, R. Gerald

AU - Fronick, Catrina

AU - Fulton, Lucinda A.

AU - Fulton, Robert S.

AU - Gabisi, Ramatu Ayiesha

AU - Gerlach, Daniel

AU - Graves, Tina A.

AU - Gunaratne, Preethi H.

AU - Hahn, Matthew W.

AU - Haig, David

AU - Han, Yi

AU - Harris, R. Alan

AU - Herrero, Javier

AU - Hillier, LaDeana W.

AU - Hubley, Robert

AU - Hughes, Jennifer F.

AU - Hume, Jennifer

AU - Jhangiani, Shalini N.

AU - Jorde, Lynn B.

AU - Joshi, Vandita

AU - Karakor, Emre

AU - Konkel, Miriam K.

AU - Kosiol, Carolin

AU - LKovar, Christie

AU - Kriventseva, Evgenia V.

AU - Lee, Sandra L.

AU - Lewis, Lora R.

AU - Liu, Yih Shin

AU - Lopez, John

AU - Lopez-Otin, Carlos

AU - Lorente-Galdos, Belen

AU - Mansfield, Keith G.

AU - Marques-Bonet, Tomas

AU - Minx, Patrick

AU - Misceo, Doriana

AU - Moncrieff, J. Scott

AU - Morgan, Margaret B.

AU - Nazareth, Lynne V.

AU - Newsham, Irene

AU - Nguyen, Ngoc Bich

AU - Okwuonu, Geoffrey O.

AU - Prabhakar, Shyam

AU - Perales, Lora

AU - Pu, Ling Ling

AU - Puente, Xose S.

AU - Quesada, Victor

AU - Ranck, Megan C.

AU - Raney, Brian J.

AU - Raveendran, Muthuswamy

AU - Deiros, David Rio

AU - Rocchi, Mariano

AU - Rodriguez, David

AU - Ross, Corinna

AU - Ruffier, Magali

AU - Ruiz, San Juana

AU - Sajjadian, Saba

AU - Santibanez, Jireh

AU - Schrider, Daniel R.

AU - Searle, Steve

AU - Skaletsky, Helen

AU - Soibam, Benjamin

AU - Smit, Arian F A

AU - Tennakoon, Jayantha B.

AU - Tomaska, Lubomir

AU - Ullmer, Brygg

AU - Vejnar, Charles E.

AU - Ventura, Mario

AU - Vilella, Albert J.

AU - Vinar, Tomas

AU - Vogel, Jan Hinnerk

AU - Walker, Jerilyn A.

AU - Wang, Qing

AU - Warner, Crystal M.

AU - Wildman, Derek E.

AU - Witherspoon, David J.

AU - Wright, Rita A.

AU - Wu, Yuanqing

AU - Xiao, Weimin

AU - Xing, Jinchuan

AU - Zdobnov, Evgeny M.

AU - Zhu, Baoli

AU - Gibbs, Richard A.

AU - Wilson, Richard K.

PY - 2014

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N2 - We report the whole-genome sequence of the common marmoset (Callithrix jacchus). The 2.26-Gb genome of a female marmoset was assembled using Sanger read data (6×) and a whole-genome shotgun strategy. A first analysis has permitted comparison with the genomes of apes and Old World monkeys and the identification of specific features that might contribute to the unique biology of this diminutive primate, including genetic changes that may influence body size, frequent twinning and chimerism. We observed positive selection in growth hormone/insulin-like growth factor genes (growth pathways), respiratory complex I genes (metabolic pathways), and genes encoding immunobiological factors and proteases (reproductive and immunity pathways). In addition, both protein-coding and microRNA genes related to reproduction exhibited evidence of rapid sequence evolution. This genome sequence for a New World monkey enables increased power for comparative analyses among available primate genomes and facilitates biomedical research application.

AB - We report the whole-genome sequence of the common marmoset (Callithrix jacchus). The 2.26-Gb genome of a female marmoset was assembled using Sanger read data (6×) and a whole-genome shotgun strategy. A first analysis has permitted comparison with the genomes of apes and Old World monkeys and the identification of specific features that might contribute to the unique biology of this diminutive primate, including genetic changes that may influence body size, frequent twinning and chimerism. We observed positive selection in growth hormone/insulin-like growth factor genes (growth pathways), respiratory complex I genes (metabolic pathways), and genes encoding immunobiological factors and proteases (reproductive and immunity pathways). In addition, both protein-coding and microRNA genes related to reproduction exhibited evidence of rapid sequence evolution. This genome sequence for a New World monkey enables increased power for comparative analyses among available primate genomes and facilitates biomedical research application.

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