Object structure
Title:

Sekwencjonowanie porównawcze genomów: generowanie markerów genetycznych typu INDEL i SNP

Subtitle:

Journal of Biotechnology, Computational Biology and Bionanotechnology

Creator:

Ziółkowski, Piotr ; Babula- Skowrońska, Danuta ; Kaczmarek, Małgorzata ; Cieśla, Agata ; Sadowski, Jan

Publisher:

Komitet Biotechnologii PAN ; Instytut Chemii Bioorganicznej PAN

Date issued/created:

2010

Description:

prace przeglądowe

Subject and Keywords:

biotechnologia ; comparative sequencing, resequencing, genome structure, DNA polymorphism, genetic markers, indel, SNP, biotechnology

Abstract:

Comparison of genome sequences has become an important approach to identify and understand biological significance of the variations and fluxes that occur through a genome. The main subject of the work concentrates on identification of indels and SNPs in large genomes and their potential application in biotechnology. Importantly, fine elaboration of genome structure and sequence polymorphism that results from resequencing promises to benefit breeding, biotechnology and medical research. The article also describes how the data extracted from comparative studies of genomes depends on phylogenetic distances of the species involved.

References:

AItschul S. F„ Gish W., Miller W„ et al., (1990), J Mol Biol., 215, 403-410.
Pallen M. J„ Wren B. W„ (2007), Nature., 449, 835-842.
Tettelin H., Riley D., Cattuto C., et al., (2008), Curr Opin Microbiol., 11, 472-477.
Jander G., Norris S. R., Rounsley S. D., et al., (2002), Plant Physiol., 129, 440-450.
Ziółkowski P. A., Koczyk G., Galganski L., et al., (2009), Nucleic Acids Res., 37, 3189-3201.
Nagano A. J., Fukazawa M., Flayashi M., et al., (2008), Plant J., 56, 1058-1065.
AGI, (2000), Nature, 408, 796-815.
Wright S. 1., Agrawal N., Bureau T. E., (2003), Genome Res., 13, 1897-1903.
Copenhaver G. P., Nickel K., Kuromori T., et al., (1999), Science, 286, 2468-2474.
Clark R. M., Schweikert G., Toomajian C., et al., (2007), Science, 317, 338-342.
Guirouilh-Barbat J., Huck S., Bertrand P., et al., (2004), Mol Cell, 14, 611-623.
Zhang Z., Gerstein M., (2003), Nucleic Acids Res., 31, 5338-5348.
Ossowski S., Schneeberger K., Clark R. M., et al., (2008), Genome Res., 18, 2024-2033.
Belo A., Beatty M. K., Hondred D., et al., (2010), Theor Appl Genet., 120, 355-367.
Salathia N., Lee H. N., Sangster T. A., et al., (2007), Plant J., 51, 727-737.
Lijavetzky D., Cabezas J. A., Ibanez A., et al., (2007), BMC Genomics., 8, 424.
Khlestkina E. K., Salina E. A., (2006), Genetika, 42, 725-36.
Vignal A., Milan D., SanCristobal M., et al., (2002), Genet Sel Evol., 34, 275-305.
Bondi C. O., Rodriguez G., Gould G. G., et al., (2008), Neuropsychopharmacology, 33, 320-331.
Ching A., Caldwell K. S., Jung M., et al., (2002), BMC Genet., 3, 19.
Rostoks N., Mudie S., Cardie L., et al., (2005), Mol Genet Genomics, 274, 515-527.
Borevitz j. 0., Liang D., Plouffe D., et al., (2003), Genome Res., 13, 513-523.
Schmid K. j., Sorensen T. R., Stracke R., et al., (2003), Genome Res., 13, 1250-1257.
Somers D. j., Kirkpatrick R., Moniwa M., et al., (2003), Genome, 46, 431-437.
Ganal M. W., Altmann T., Roder M. S., (2009), Curr Opin Plant Biol., 12, 211-217.
Frazer K. A., Ballinger D. G., Cox D. R., et al., (2007), Nature, 449, 851-861.
McCarthy M. I., Abecasis G. R., Cardon L. R., et al., (2008), Nat Rev Genet., 9, 356-369.
Batley j.. Barker G., O’Sullivan H., et al., (2003), Plant Physiol., 132, 84-91.
Kota R., Rudd S., Facius A., et al., (2003), Mol Genet Genomics, 270, 24-33.
Yamamoto N., Tsugane T., Watanabe M., et al., (2005), Gene, 356, 127-134.
Borevitz J. O., Hazen S. P., Michael T. P., et al., (2007), Proc Natl Acad Sci U S A, 104, 12057-12062.
Singer T., Fan Y., Chang H. S., et al., (2006), PLoS Genet., 2, el44.
Kumar R., Qiu J., Joshi T., et al., (2007), PLoS One, 2, e284.
Rostoks N., Borevitz J. O., Hedley P. E., et al., (2005), Genome Biol., 6, R54.
Kirst M., Caldo R., Casati P., et al., (2006), Plant Biotechnol J., 4, 489-498.
Das S., Bhat P. R., Sudhakar C., et al., (2008), BMC Genomics, 9, 107.
Wriglit S. I., Bi I. V., Schroeder S. G., et al., (2005), Science, 308, 1310-1314.
Yamasaki M., Tenaillon M. I., Bi I. V., et al., (2005), Plant Celi, 17, 2859-2872.
Choi I. Y., Hyten D. L., Matukumalli L. K., et al., (2007), Genetics, 176, 685-696.
Nordborg M., Hu T. T., Ishino Y., et al., (2005), PLoS Biol., 3, el96.
Nasu S., Suzuki]., Ohta R., et al., (2002), DNA Res., 9, 163-171.
van Deynze A., Stoffel K., Buell C. R., et al., (2007), BMC Genomics, 8, 465.
Schneider K., Kulosa D., Soerensen T. R., et al., (2007), Theor Appl Genet., 115, 601-615.
Kota R., Varshney R. K., Prasad M., et al., (2008), Funct Integr Genomics, 8, 223-233.
Hillier L. W., Marth G. T., Quinlan A. R., et al., (2008), Nat Methods, 5, 183-188.
Goldberg S. M., Johnson J., Busam D., et al., (2006), Proc NatI Acad Sci USA, 103, 11240-11245.
Novaes E., Drost D. R., Farmerie W. G., et al., (2008), BMC Genomics, 9, 312.
Barbazuk W. B., Emrich S. J., Chen H. D., et al., (2007), Plant J., 51, 910-918.
van Orsouw N. J., Hogers R. C., Janssen A., et al., (2007), PLoS One., 2, el 172.
Chang S. H., Wang K. S., Chao S. J., et al., (2009), J Hazard Mater., 166, 1127-1133.
Ravel C., Praud S., Murigneux A., et al., (2006), Genome. 49, 1131-1139.
Cordeiro G. M., Eliott F., McIntyre C. L., et al., (2006), Theor Appl Genet., 113, 331-343.
TangJ., Vosman B., Voorrips R. E., et al., (2006), BMC Bioinformatics, 7, 438.
Li L., Paulo M. J., Strahwald J., et al., (2008), Theor Appl Genet., 116, 1167-1181.
Simko I., Haynes K. G., Jones R. W., (2006), Genetics., 173, 2237-2245.
Trick M., Long Y., MengJ., et al., (2009), Plant Biotechnol J., 7, 334-346.
Belo A., Zheng P., Luck S., et al., (2008), Mol Genet Genomics, 279, 1-10.
Ye S., Dhillon S., Ke X. Y., et al., (2001), Nucleic Acids Research, 29, art. no.-e88.
Cho R. J., Mindrinos M., Richards D. R., et al., (1999), Nat Genet., 23, 203-207.
Brookes A. J., (1999), Gene, 234, 177-186.
Gutterson N., Zhang J. Z., (2004), Curr Opin Plant Biol., 7, 226-230.
Jones E., Chu W. C., Ayele M., et al., (2009), Molecular Breeding, 24, 165-176.
Troggio M., Malacarne G., Coppola G., et al., (2007), Genetics. 176, 2637-2650.
Bhatrramakki D., Ching A., Dolan M., Tingey S., Rafalski A., (2000), Maize Genet. Coop. Newslett. 74, 54.
Jehan T., Lakhanpalu S., (2006), Indian Journal of Biotechnology, 5, 435-459.

Relation:

Biotechnologia, vol.91, 4 (2010)-.

Volume:

91

Issue:

4

Start page:

53

End page:

68

Resource type:

Tekst

Detailed Resource Type:

Artykuł

Format:

application/pdf

Resource Identifier:

IChB B-86

Source:

Biblioteka Instytutu Chemii Bioorganicznej PAN

Language:

pol

Language of abstract:

eng

Temporal coverage:

2010

Rights:

Licencja Creative Commons Uznanie autorstwa-Na tych samych warunkach 4.0

Terms of use:

-

Digitizing institution:

Instytut Chemii Bioorganiczneji Polskiej Akademii Nauk

Original in:

Instytut Chemii Bioorganiczneji Polskiej Akademii Nauk

Projects co-financed by:

Program Operacyjny Polska Cyfrowa, lata 2014-2020, Działanie 2.3 : Cyfrowa dostępność i użyteczność sektora publicznego; środki z Europejskiego Funduszu Rozwoju Regionalnego oraz współfinansowania krajowego z budżetu państwa

Access:

Otwarty

×

Citation

Citation style: