The DNA sequence, annotation and analysis of human chromosome 3

Donna M. Muzny, Steven E. Scherer, Rajinder Kaul, Jing Wang, Jun Yu, Ralf Sudbrak, Christian J. Buhay, Rui Chen, Andrew Cree, Yan Ding, Shannon Dugan-Rocha, Rachel Gill, Preethi Gunaratne, R. Alan Harris, Alicia C. Hawes, Judith Hernandez, Anne V. Hodgson, Jennifer Hume, Andrew Jackson, Ziad Mohid KhanChristie Kovar-Smith, Lora R. Lewis, Ryan J. Lozado, Michael L. Metzker, Aleksandar Milosavljevic, George R. Miner, Margaret B. Morgan, Lynne V. Nazareth, Graham Scott, Erica Sodergren, Xing Zhi Song, David Steffen, Sharon Wei, David A. Wheeler, Mathew W. Wright, Kim C. Worley, Ye Yuan, Zhengdong Zhang, Charles Q. Adams, M. Ali Ansari-Lari, Mulu Ayele, Mary J. Brown, Guan Chen, Zhijian Chen, James Clendenning, Kerstin P. Clerc-Blankenburg, Runsheng Chen, Zhu Chen, Clay Davis, Oliver Delgado, Huyen H. Dinh, Wei Dong, Heather Draper, Stephen Ernst, Gang Fu, Manuel L. Gonzalez-Garay, Dawn K. Garcia, Will Gillett, Jun Gu, Bailin Hao, Eric Haugen, Paul Havlak, Xin He, Steffen Hennig, Songnian Hu, Wei Huang, Laronda R. Jackson, Leni S. Jacob, Susan H. Kelly, Michael Kube, Ruth Levy, Zhangwan Li, Bin Liu, Jing Liu, Wen Liu, Jing Lu, Manjula Maheshwari, Bao Viet Nguyen, Geoffrey O. Okwuonu, Anthony Palmeiri, Shiran Pasternak, Lesette M. Perez, Karen A. Phelps, Farah J H Plopper, Boqin Qiang, Christopher Raymond, Ruben Rodriguez, Channakhone Saenphimmachak, Jireh Santibanez, Hua Shen, Yan Shen, Sandhya Subramanian, Paul E. Tabor, Daniel Verduzco, Lenee Waldron, Jian Wang, Jun Wang, Qiaoyan Wang, Gabrielle A. Williams, Gane K S Wong, Zhijian Yao, JingKun Zhang, Xiuqing Zhang, Guoping Zhao, Jianling Zhou, Yang Zhou, David Nelson, Hans Lehrach, Richard Reinhardt, Susan L. Naylor, Huanming Yang, Maynard Olson, George Weinstock, Richard A. Gibbs

Research output: Contribution to journalArticle

30 Citations (Scopus)

Abstract

After the completion of a draft human genome sequence1, the International Human Genome Sequencing Consortium has proceeded to finish2 and annotate each of the 24 chromosomes comprising the human genome. Here we describe the sequencing and analysis of human chromosome 3, one of the largest human chromosomes. Chromosome 3 comprises just four contigs, one of which currently represents the longest unbroken stretch of finished DNA sequence known so far. The chromosome is remarkable in having the lowest rate of segmental duplication in the genome. It also includes a chemokine receptor gene cluster as well as numerous loci involved in multiple human cancers such as the gene encoding FHIT, which contains the most common constitutive fragile site in the genome, FRA3B3. Using genomic sequence from chimpanzee and rhesus macaque, we were able to characterize the breakpoints defining a large pericentric inversion that occurred some time after the split of Homininae from Ponginae, and propose an evolutionary history of the inversion.

Original languageEnglish (US)
Pages (from-to)1194-1198
Number of pages5
JournalNature
Volume440
Issue number7088
DOIs
StatePublished - Apr 27 2006
Externally publishedYes

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Chromosomes, Human, Pair 3
Human Chromosomes
Human Genome
DNA Sequence Analysis
Chromosomes
Genomic Segmental Duplications
Genome
Pan troglodytes
Chemokine Receptors
Multigene Family
Macaca mulatta
Genes
Neoplasms

ASJC Scopus subject areas

  • General

Cite this

Muzny, D. M., Scherer, S. E., Kaul, R., Wang, J., Yu, J., Sudbrak, R., ... Gibbs, R. A. (2006). The DNA sequence, annotation and analysis of human chromosome 3. Nature, 440(7088), 1194-1198. https://doi.org/10.1038/nature04728

The DNA sequence, annotation and analysis of human chromosome 3. / Muzny, Donna M.; Scherer, Steven E.; Kaul, Rajinder; Wang, Jing; Yu, Jun; Sudbrak, Ralf; Buhay, Christian J.; Chen, Rui; Cree, Andrew; Ding, Yan; Dugan-Rocha, Shannon; Gill, Rachel; Gunaratne, Preethi; Harris, R. Alan; Hawes, Alicia C.; Hernandez, Judith; Hodgson, Anne V.; Hume, Jennifer; Jackson, Andrew; Khan, Ziad Mohid; Kovar-Smith, Christie; Lewis, Lora R.; Lozado, Ryan J.; Metzker, Michael L.; Milosavljevic, Aleksandar; Miner, George R.; Morgan, Margaret B.; Nazareth, Lynne V.; Scott, Graham; Sodergren, Erica; Song, Xing Zhi; Steffen, David; Wei, Sharon; Wheeler, David A.; Wright, Mathew W.; Worley, Kim C.; Yuan, Ye; Zhang, Zhengdong; Adams, Charles Q.; Ansari-Lari, M. Ali; Ayele, Mulu; Brown, Mary J.; Chen, Guan; Chen, Zhijian; Clendenning, James; Clerc-Blankenburg, Kerstin P.; Chen, Runsheng; Chen, Zhu; Davis, Clay; Delgado, Oliver; Dinh, Huyen H.; Dong, Wei; Draper, Heather; Ernst, Stephen; Fu, Gang; Gonzalez-Garay, Manuel L.; Garcia, Dawn K.; Gillett, Will; Gu, Jun; Hao, Bailin; Haugen, Eric; Havlak, Paul; He, Xin; Hennig, Steffen; Hu, Songnian; Huang, Wei; Jackson, Laronda R.; Jacob, Leni S.; Kelly, Susan H.; Kube, Michael; Levy, Ruth; Li, Zhangwan; Liu, Bin; Liu, Jing; Liu, Wen; Lu, Jing; Maheshwari, Manjula; Nguyen, Bao Viet; Okwuonu, Geoffrey O.; Palmeiri, Anthony; Pasternak, Shiran; Perez, Lesette M.; Phelps, Karen A.; Plopper, Farah J H; Qiang, Boqin; Raymond, Christopher; Rodriguez, Ruben; Saenphimmachak, Channakhone; Santibanez, Jireh; Shen, Hua; Shen, Yan; Subramanian, Sandhya; Tabor, Paul E.; Verduzco, Daniel; Waldron, Lenee; Wang, Jian; Wang, Jun; Wang, Qiaoyan; Williams, Gabrielle A.; Wong, Gane K S; Yao, Zhijian; Zhang, JingKun; Zhang, Xiuqing; Zhao, Guoping; Zhou, Jianling; Zhou, Yang; Nelson, David; Lehrach, Hans; Reinhardt, Richard; Naylor, Susan L.; Yang, Huanming; Olson, Maynard; Weinstock, George; Gibbs, Richard A.

In: Nature, Vol. 440, No. 7088, 27.04.2006, p. 1194-1198.

Research output: Contribution to journalArticle

Muzny, DM, Scherer, SE, Kaul, R, Wang, J, Yu, J, Sudbrak, R, Buhay, CJ, Chen, R, Cree, A, Ding, Y, Dugan-Rocha, S, Gill, R, Gunaratne, P, Harris, RA, Hawes, AC, Hernandez, J, Hodgson, AV, Hume, J, Jackson, A, Khan, ZM, Kovar-Smith, C, Lewis, LR, Lozado, RJ, Metzker, ML, Milosavljevic, A, Miner, GR, Morgan, MB, Nazareth, LV, Scott, G, Sodergren, E, Song, XZ, Steffen, D, Wei, S, Wheeler, DA, Wright, MW, Worley, KC, Yuan, Y, Zhang, Z, Adams, CQ, Ansari-Lari, MA, Ayele, M, Brown, MJ, Chen, G, Chen, Z, Clendenning, J, Clerc-Blankenburg, KP, Chen, R, Chen, Z, Davis, C, Delgado, O, Dinh, HH, Dong, W, Draper, H, Ernst, S, Fu, G, Gonzalez-Garay, ML, Garcia, DK, Gillett, W, Gu, J, Hao, B, Haugen, E, Havlak, P, He, X, Hennig, S, Hu, S, Huang, W, Jackson, LR, Jacob, LS, Kelly, SH, Kube, M, Levy, R, Li, Z, Liu, B, Liu, J, Liu, W, Lu, J, Maheshwari, M, Nguyen, BV, Okwuonu, GO, Palmeiri, A, Pasternak, S, Perez, LM, Phelps, KA, Plopper, FJH, Qiang, B, Raymond, C, Rodriguez, R, Saenphimmachak, C, Santibanez, J, Shen, H, Shen, Y, Subramanian, S, Tabor, PE, Verduzco, D, Waldron, L, Wang, J, Wang, J, Wang, Q, Williams, GA, Wong, GKS, Yao, Z, Zhang, J, Zhang, X, Zhao, G, Zhou, J, Zhou, Y, Nelson, D, Lehrach, H, Reinhardt, R, Naylor, SL, Yang, H, Olson, M, Weinstock, G & Gibbs, RA 2006, 'The DNA sequence, annotation and analysis of human chromosome 3', Nature, vol. 440, no. 7088, pp. 1194-1198. https://doi.org/10.1038/nature04728
Muzny DM, Scherer SE, Kaul R, Wang J, Yu J, Sudbrak R et al. The DNA sequence, annotation and analysis of human chromosome 3. Nature. 2006 Apr 27;440(7088):1194-1198. https://doi.org/10.1038/nature04728
Muzny, Donna M. ; Scherer, Steven E. ; Kaul, Rajinder ; Wang, Jing ; Yu, Jun ; Sudbrak, Ralf ; Buhay, Christian J. ; Chen, Rui ; Cree, Andrew ; Ding, Yan ; Dugan-Rocha, Shannon ; Gill, Rachel ; Gunaratne, Preethi ; Harris, R. Alan ; Hawes, Alicia C. ; Hernandez, Judith ; Hodgson, Anne V. ; Hume, Jennifer ; Jackson, Andrew ; Khan, Ziad Mohid ; Kovar-Smith, Christie ; Lewis, Lora R. ; Lozado, Ryan J. ; Metzker, Michael L. ; Milosavljevic, Aleksandar ; Miner, George R. ; Morgan, Margaret B. ; Nazareth, Lynne V. ; Scott, Graham ; Sodergren, Erica ; Song, Xing Zhi ; Steffen, David ; Wei, Sharon ; Wheeler, David A. ; Wright, Mathew W. ; Worley, Kim C. ; Yuan, Ye ; Zhang, Zhengdong ; Adams, Charles Q. ; Ansari-Lari, M. Ali ; Ayele, Mulu ; Brown, Mary J. ; Chen, Guan ; Chen, Zhijian ; Clendenning, James ; Clerc-Blankenburg, Kerstin P. ; Chen, Runsheng ; Chen, Zhu ; Davis, Clay ; Delgado, Oliver ; Dinh, Huyen H. ; Dong, Wei ; Draper, Heather ; Ernst, Stephen ; Fu, Gang ; Gonzalez-Garay, Manuel L. ; Garcia, Dawn K. ; Gillett, Will ; Gu, Jun ; Hao, Bailin ; Haugen, Eric ; Havlak, Paul ; He, Xin ; Hennig, Steffen ; Hu, Songnian ; Huang, Wei ; Jackson, Laronda R. ; Jacob, Leni S. ; Kelly, Susan H. ; Kube, Michael ; Levy, Ruth ; Li, Zhangwan ; Liu, Bin ; Liu, Jing ; Liu, Wen ; Lu, Jing ; Maheshwari, Manjula ; Nguyen, Bao Viet ; Okwuonu, Geoffrey O. ; Palmeiri, Anthony ; Pasternak, Shiran ; Perez, Lesette M. ; Phelps, Karen A. ; Plopper, Farah J H ; Qiang, Boqin ; Raymond, Christopher ; Rodriguez, Ruben ; Saenphimmachak, Channakhone ; Santibanez, Jireh ; Shen, Hua ; Shen, Yan ; Subramanian, Sandhya ; Tabor, Paul E. ; Verduzco, Daniel ; Waldron, Lenee ; Wang, Jian ; Wang, Jun ; Wang, Qiaoyan ; Williams, Gabrielle A. ; Wong, Gane K S ; Yao, Zhijian ; Zhang, JingKun ; Zhang, Xiuqing ; Zhao, Guoping ; Zhou, Jianling ; Zhou, Yang ; Nelson, David ; Lehrach, Hans ; Reinhardt, Richard ; Naylor, Susan L. ; Yang, Huanming ; Olson, Maynard ; Weinstock, George ; Gibbs, Richard A. / The DNA sequence, annotation and analysis of human chromosome 3. In: Nature. 2006 ; Vol. 440, No. 7088. pp. 1194-1198.
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abstract = "After the completion of a draft human genome sequence1, the International Human Genome Sequencing Consortium has proceeded to finish2 and annotate each of the 24 chromosomes comprising the human genome. Here we describe the sequencing and analysis of human chromosome 3, one of the largest human chromosomes. Chromosome 3 comprises just four contigs, one of which currently represents the longest unbroken stretch of finished DNA sequence known so far. The chromosome is remarkable in having the lowest rate of segmental duplication in the genome. It also includes a chemokine receptor gene cluster as well as numerous loci involved in multiple human cancers such as the gene encoding FHIT, which contains the most common constitutive fragile site in the genome, FRA3B3. Using genomic sequence from chimpanzee and rhesus macaque, we were able to characterize the breakpoints defining a large pericentric inversion that occurred some time after the split of Homininae from Ponginae, and propose an evolutionary history of the inversion.",
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T1 - The DNA sequence, annotation and analysis of human chromosome 3

AU - Muzny, Donna M.

AU - Scherer, Steven E.

AU - Kaul, Rajinder

AU - Wang, Jing

AU - Yu, Jun

AU - Sudbrak, Ralf

AU - Buhay, Christian J.

AU - Chen, Rui

AU - Cree, Andrew

AU - Ding, Yan

AU - Dugan-Rocha, Shannon

AU - Gill, Rachel

AU - Gunaratne, Preethi

AU - Harris, R. Alan

AU - Hawes, Alicia C.

AU - Hernandez, Judith

AU - Hodgson, Anne V.

AU - Hume, Jennifer

AU - Jackson, Andrew

AU - Khan, Ziad Mohid

AU - Kovar-Smith, Christie

AU - Lewis, Lora R.

AU - Lozado, Ryan J.

AU - Metzker, Michael L.

AU - Milosavljevic, Aleksandar

AU - Miner, George R.

AU - Morgan, Margaret B.

AU - Nazareth, Lynne V.

AU - Scott, Graham

AU - Sodergren, Erica

AU - Song, Xing Zhi

AU - Steffen, David

AU - Wei, Sharon

AU - Wheeler, David A.

AU - Wright, Mathew W.

AU - Worley, Kim C.

AU - Yuan, Ye

AU - Zhang, Zhengdong

AU - Adams, Charles Q.

AU - Ansari-Lari, M. Ali

AU - Ayele, Mulu

AU - Brown, Mary J.

AU - Chen, Guan

AU - Chen, Zhijian

AU - Clendenning, James

AU - Clerc-Blankenburg, Kerstin P.

AU - Chen, Runsheng

AU - Chen, Zhu

AU - Davis, Clay

AU - Delgado, Oliver

AU - Dinh, Huyen H.

AU - Dong, Wei

AU - Draper, Heather

AU - Ernst, Stephen

AU - Fu, Gang

AU - Gonzalez-Garay, Manuel L.

AU - Garcia, Dawn K.

AU - Gillett, Will

AU - Gu, Jun

AU - Hao, Bailin

AU - Haugen, Eric

AU - Havlak, Paul

AU - He, Xin

AU - Hennig, Steffen

AU - Hu, Songnian

AU - Huang, Wei

AU - Jackson, Laronda R.

AU - Jacob, Leni S.

AU - Kelly, Susan H.

AU - Kube, Michael

AU - Levy, Ruth

AU - Li, Zhangwan

AU - Liu, Bin

AU - Liu, Jing

AU - Liu, Wen

AU - Lu, Jing

AU - Maheshwari, Manjula

AU - Nguyen, Bao Viet

AU - Okwuonu, Geoffrey O.

AU - Palmeiri, Anthony

AU - Pasternak, Shiran

AU - Perez, Lesette M.

AU - Phelps, Karen A.

AU - Plopper, Farah J H

AU - Qiang, Boqin

AU - Raymond, Christopher

AU - Rodriguez, Ruben

AU - Saenphimmachak, Channakhone

AU - Santibanez, Jireh

AU - Shen, Hua

AU - Shen, Yan

AU - Subramanian, Sandhya

AU - Tabor, Paul E.

AU - Verduzco, Daniel

AU - Waldron, Lenee

AU - Wang, Jian

AU - Wang, Jun

AU - Wang, Qiaoyan

AU - Williams, Gabrielle A.

AU - Wong, Gane K S

AU - Yao, Zhijian

AU - Zhang, JingKun

AU - Zhang, Xiuqing

AU - Zhao, Guoping

AU - Zhou, Jianling

AU - Zhou, Yang

AU - Nelson, David

AU - Lehrach, Hans

AU - Reinhardt, Richard

AU - Naylor, Susan L.

AU - Yang, Huanming

AU - Olson, Maynard

AU - Weinstock, George

AU - Gibbs, Richard A.

PY - 2006/4/27

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N2 - After the completion of a draft human genome sequence1, the International Human Genome Sequencing Consortium has proceeded to finish2 and annotate each of the 24 chromosomes comprising the human genome. Here we describe the sequencing and analysis of human chromosome 3, one of the largest human chromosomes. Chromosome 3 comprises just four contigs, one of which currently represents the longest unbroken stretch of finished DNA sequence known so far. The chromosome is remarkable in having the lowest rate of segmental duplication in the genome. It also includes a chemokine receptor gene cluster as well as numerous loci involved in multiple human cancers such as the gene encoding FHIT, which contains the most common constitutive fragile site in the genome, FRA3B3. Using genomic sequence from chimpanzee and rhesus macaque, we were able to characterize the breakpoints defining a large pericentric inversion that occurred some time after the split of Homininae from Ponginae, and propose an evolutionary history of the inversion.

AB - After the completion of a draft human genome sequence1, the International Human Genome Sequencing Consortium has proceeded to finish2 and annotate each of the 24 chromosomes comprising the human genome. Here we describe the sequencing and analysis of human chromosome 3, one of the largest human chromosomes. Chromosome 3 comprises just four contigs, one of which currently represents the longest unbroken stretch of finished DNA sequence known so far. The chromosome is remarkable in having the lowest rate of segmental duplication in the genome. It also includes a chemokine receptor gene cluster as well as numerous loci involved in multiple human cancers such as the gene encoding FHIT, which contains the most common constitutive fragile site in the genome, FRA3B3. Using genomic sequence from chimpanzee and rhesus macaque, we were able to characterize the breakpoints defining a large pericentric inversion that occurred some time after the split of Homininae from Ponginae, and propose an evolutionary history of the inversion.

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