Simple Sequence Repeat (SSR) and GC Distribution in the Arabidopsis thaliana Genome |
Mortimer Jennifer C
(Plant Biotechnology Centre, Primary Industries Research Victoria, La Trobe University, Victorian Bioinformatics Consortium, Plant Biotechnology Centre, Primary Industries Research Victoria, La Trobe University, Department of Plant Sciences, University of Cambridge)
Batley Jacqueline (Plant Biotechnology Centre, Primary Industries Research Victoria, La Trobe University) Love Christopher G (Plant Biotechnology Centre, Primary Industries Research Victoria, La Trobe University, Victorian Bioinformatics Consortium, Plant Biotechnology Centre, Primary Industries Research Victoria, La Trobe University) Logan Erica (Plant Biotechnology Centre, Primary Industries Research Victoria, La Trobe University, Victorian Bioinformatics Consortium, Plant Biotechnology Centre, Primary Industries Research Victoria, La Trobe University) Edwards David (Plant Biotechnology Centre, Primary Industries Research Victoria, La Trobe University, Victorian Bioinformatics Consortium, Plant Biotechnology Centre, Primary Industries Research Victoria, La Trobe University) |
1 | Abajian C (1994) SPUTNIK |
2 | Kantety RV, La Rota M, Matthews DE, Sorrells ME (2002) Data mining for simple sequence repeats in expressed sequence tags from barley, maize, rice, sorghum and wheat. Plant Mol Biol 48: 501-510 DOI ScienceOn |
3 | Nanda I, Zischler H, Epplen C, Gutlenbach M, Schmid M (1991) Chromosomal organisation of simple repeated DNA Sequences used for DNA fingerprinting. Electrophoresis 12: 193-203 DOI ScienceOn |
4 | Sreenu VB, Alevoor V, Nagaraju J, Nagarajaram HA (2003) MICdb: database of prokaryotic microsatellites. Nucleic Acids Res 31: 106-108 DOI ScienceOn |
5 | Xu X, Peng M, Fang Z, Xu X (2000) The direction of microsatellite mutations is dependent upon allele length. Nat Genet 24: 396-399 DOI ScienceOn |
6 | Moxon ER, Wills C (1999) DNA Microsatellites: Agents of Evolution. Sci Am 280: 94-99 DOI |
7 | Tautz D, Renz M (1984) Simple sequences as ubiquitous repetitive components of eukaryotic genomes. Nucleic Acids Res 12: 4127-4138 DOI ScienceOn |
8 | Varshney RK, Thiel T, Stein N, Langridge P, Graner A (2002) In silica analysis on frequency and distribution of microsatellites in ESTs of some cereal species. Cell Mol Biol Lett 7: 537-546 |
9 | Khashnobish A, Hamann A, Osiewacz HD (1999) Modulation of gene expression by (CA)(n) microsatellites in the filamentous ascomycete Podospora anserina. Applied Microbiol Biotech 52: 191-195 DOI ScienceOn |
10 | Robinson AJ, Love CG, Batley J, Barker G, Edwards 0 (2004) Simple sequence repeat marker loci discovery using SSRPrimer. Bioinformatics (In Press) DOI ScienceOn |
11 | Brandes A, Thompson H, Dean C, Heslop-Harrison JS (1997) Multiple repetitive DNA sequences in the paracentromeric regions of Arabidopsis thaliana L. Chromosome Res 5: 238-246 DOI ScienceOn |
12 |
Weber JL (1990) Informativeness of human |
13 | Pardue ML, Lowenhaupt K, Rich A, Nordheim A (1987) (DCDA)N.(DG-DT)N sequences have evolutionarily conserved chromosomal locations in Drosophila with implications for roles in chromosome structure and function. EMBO J 6: 1781-1789 |
14 | Ross CL, Dyer KA, Erez T, Miller SJ, Jaenike J, Markow TA (2003) Rapid divergence of microsatellite abundance among species of Drosophila. Mol Biol Evol 20: 1143-1157 DOI ScienceOn |
15 | Dieringer D, Schlotterer C (2003) Two distinct modes of microsatellite mutation processes: evidence from the complete genomic sequences of nine species. Genome Res 1: 2242-2251 DOI ScienceOn |
16 | Holland JB, Hellend SJ, Sharopova N, Rhyne DC (2001) Polymorphism of PCR based markers targeting exons, introns, promoter regions, and SSRs in maize and introns and repeat sequences in oat. Genome 44: 1065-1076 DOI ScienceOn |
17 | Powell W, Machray GC, Provan J (1996) Polymorphism revealed by simple sequence repeats. Trends Plant Sci 1: 215-222 DOI ScienceOn |
18 | Katti MV, Ranjekar PK, Gupta VS (2001) Differential distribution of simple sequence repeats in eukaryotic genome sequences. Mol Biol Evol 18: 1161-1167 DOI ScienceOn |
19 | Lowenhaupt KY, Rich A, Pardue ML (1989) Nonrandom distribution of long mono-nucleotide and dinucleotide repeats in Drosophila chromosomes - correlations with dosage compensation, heterochromatin and recombination. Mol Cell Biol 9: 1173-1182 DOI |
20 | Awadalla P, Ritland K (1997) Microsatellite variation and evolution in the Mimulus guttatus species complex with contracting mating systems. Mol Biol Evol 14: 1023-1034 DOI ScienceOn |
21 | Gupta M, Chyi Y-S, Romero-Severson J, Owen JL (1994) Amplification of DNA markers from evolutionarily diverse genomes using single primers of simple-sequence repeats. Theor Appl Genet 89: 998-1006 DOI ScienceOn |
22 | Subramanian S, Mishra RK, Singh L (2003) Genome-wide analysis of microsatellite repeats in humans: their abundance and density in specific genomic regions. Genome Biol 4: R13 DOI PUBMED |
23 | Li Y-C, Korol AB, Fahima T, Beiles A, Nevo E (2002) Microsatellites: genomic distribution, putative functions and mutational mechanisms: a review. Mol Ecol 11: 2453-2465 DOI ScienceOn |
24 | Schlotterer C (2000) Evolutionary dynamics of microsatellite DNA. Nucleic Acids Res 20: 211-215 DOI ScienceOn |
25 | Ramsay L, Macaulay M, Cardle L, Morgante M, degli Ivanissevich S, Maestri E, Powell W, Waugh R (1999) Intimate association of microsatellite repeats with retrotransposons and other dispersed repetitive elements in barley. Plant J 17: 415-425 DOI ScienceOn |
26 | Schmidt T, Heslop-Harrison JS (1996) The physical and genomic organisation of microsatellites in sugar beet. Proc Natl Acad Sci USA 93: 8761-8765 DOI |
27 | Schlctlerer C, Pemberton J (1994) The use of microsatellites for genetic analysis of natural populations. In: Scheirwater B, Streit B, Wagner GP, DeSalie R, (eds), Molecular Ecology and Evolution: Approaches and Applications. Birkhauser Verlag Basel, Switzerland, pp 71-86 |
28 | Kashi Y, King D, Soller M (1997) Simple sequence repeats as a source of quantitative genetic variation. Trends Genet 13: 74-78 DOI ScienceOn |
29 | The Arabidopsis Genome Initiative (2000) Analysis of the genome sequence of the flowering plant Arabidopsis thaliana. Nature 408: 796-815 DOI PUBMED ScienceOn |
30 | Barakat A, Han DT, Benslimane AA, Rode A, Bernadi G (1999) The gene distribution in the genomes of pea, tomato and date palm. FEBS Lett 463: 139-142 DOI PUBMED ScienceOn |
31 | Toth G, Gaspari Z, Jurka J (2000) Microsatellites in different eukaryotic genomes:survey and analysis. Genome Res 10: 967-981 DOI ScienceOn |
32 | Morgante M, Hanafey M, Powell W (2002) Microsatellites are preferentially associated with non repetitive DNA in plant genomes. Nat Genet 30: 194-200 DOI ScienceOn |
33 | Borstnik B, Pumpernik D (2002) Tandem repeats in protein coding regions of primate genes. Genome Res 12: 909-915 DOI ScienceOn |
34 | Arhondakis S, Auletta F, Torelli G, D'Onofrio G (2004) Base composition and expression level of human genes. Gene 325: 165-169 DOI PUBMED ScienceOn |
35 | Tautz D (1989) Hypervariability of simple sequences as a general source for polymorphic DNA markers. Nucleic Acids Res 17: 6463-6471 DOI PUBMED ScienceOn |
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