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. 2001 Mar;157(3):1015–1020. doi: 10.1093/genetics/157.3.1015

Hybridization-based mapping of Neurospora crassa linkage groups II and V.

V Aign 1, U Schulte 1, J D Hoheisel 1
PMCID: PMC1461553  PMID: 11238391

Abstract

As part of the German Neurospora crassa genome project, physical clone maps of linkage groups II and V of N. crassa were generated by hybridization-based mapping. To this end, two different types of clone library were used: (1) a bacterial artificial clone library of 15-fold genome coverage and an average insert size of 69 kb, and (2) three cosmid libraries--each cloned in a different vector--with 17-fold coverage and 34 kb average insert size. For analysis, the libraries were arrayed on filters. At the first stage, chromosome-specific sublibraries were selected by hybridization of the respective chromosomal DNA fragments isolated from pulsed-field electrophoresis gels. Subsequently, the sublibraries were exhaustively ordered by single clone hybridizations. Eventually, the global libraries were used again for gap filling. By this means, physical maps were generated that consist of 13 and 21 contigs, respectively, and form the basis of the current sequencing effort on the two chromosomes.

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Selected References

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  1. Beadle G. W., Tatum E. L. Genetic Control of Biochemical Reactions in Neurospora. Proc Natl Acad Sci U S A. 1941 Nov 15;27(11):499–506. doi: 10.1073/pnas.27.11.499. [DOI] [PMC free article] [PubMed] [Google Scholar]
  2. Bhandarkar S. M., Machaka S. A., Shete S. S., Kota R. N. Parallel computation of a maximum-likelihood estimator of a physical map. Genetics. 2001 Mar;157(3):1021–1043. doi: 10.1093/genetics/157.3.1021. [DOI] [PMC free article] [PubMed] [Google Scholar]
  3. Feinberg A. P., Vogelstein B. A technique for radiolabeling DNA restriction endonuclease fragments to high specific activity. Anal Biochem. 1983 Jul 1;132(1):6–13. doi: 10.1016/0003-2697(83)90418-9. [DOI] [PubMed] [Google Scholar]
  4. Frohme M., Camargo A. A., Heber S., Czink C., Simpson A. J., Hoheisel J. D., de Souza A. P. Mapping analysis of the Xylella fastidiosa genome. Nucleic Acids Res. 2000 Aug 15;28(16):3100–3104. doi: 10.1093/nar/28.16.3100. [DOI] [PMC free article] [PubMed] [Google Scholar]
  5. Frohme M., Hanke J., Aslund L., Pettersson U., Hoheisel J. D. Selective generation of chromosomal cosmid libraries within the Trypanosoma cruzi genome project. Electrophoresis. 1998 Apr;19(4):478–481. doi: 10.1002/elps.1150190404. [DOI] [PubMed] [Google Scholar]
  6. Goffeau A., Barrell B. G., Bussey H., Davis R. W., Dujon B., Feldmann H., Galibert F., Hoheisel J. D., Jacq C., Johnston M. Life with 6000 genes. Science. 1996 Oct 25;274(5287):546, 563-7. doi: 10.1126/science.274.5287.546. [DOI] [PubMed] [Google Scholar]
  7. Grigoriev A. V. Theoretical predictions and experimental observations of genomic mapping by anchoring random clones. Genomics. 1993 Feb;15(2):311–316. doi: 10.1006/geno.1993.1062. [DOI] [PubMed] [Google Scholar]
  8. Hanke J., Frohme M., Laurent J. P., Swindle J., Hoheisel J. D. Hybridization mapping of Trypanosoma cruzi chromosomes III and IV. Electrophoresis. 1998 Apr;19(4):482–485. doi: 10.1002/elps.1150190405. [DOI] [PubMed] [Google Scholar]
  9. Heber S., Hoheisel J., Vingron M. Application of bootstrap techniques to physical mapping. Genomics. 2000 Oct 15;69(2):235–241. doi: 10.1006/geno.2000.6325. [DOI] [PubMed] [Google Scholar]
  10. Herrmann B. G., Frischauf A. M. Isolation of genomic DNA. Methods Enzymol. 1987;152:180–183. doi: 10.1016/0076-6879(87)52018-3. [DOI] [PubMed] [Google Scholar]
  11. Hoheisel J. D., Maier E., Mott R., McCarthy L., Grigoriev A. V., Schalkwyk L. C., Nizetic D., Francis F., Lehrach H. High resolution cosmid and P1 maps spanning the 14 Mb genome of the fission yeast S. pombe. Cell. 1993 Apr 9;73(1):109–120. doi: 10.1016/0092-8674(93)90164-l. [DOI] [PubMed] [Google Scholar]
  12. Johnston M., Hillier L., Riles L., Albermann K., André B., Ansorge W., Benes V., Brückner M., Delius H., Dubois E. The nucleotide sequence of Saccharomyces cerevisiae chromosome XII. Nature. 1997 May 29;387(6632 Suppl):87–90. [PMC free article] [PubMed] [Google Scholar]
  13. Kelkar H. S., Griffith J., Case M. E., Covert S. F., Hall R. D., Keith C. H., Oliver J. S., Orbach M. J., Sachs M. S., Wagner J. R. The Neurospora crassa genome: cosmid libraries sorted by chromosome. Genetics. 2001 Mar;157(3):979–990. doi: 10.1093/genetics/157.3.979. [DOI] [PMC free article] [PubMed] [Google Scholar]
  14. Mott R., Grigoriev A., Maier E., Hoheisel J., Lehrach H. Algorithms and software tools for ordering clone libraries: application to the mapping of the genome of Schizosaccharomyces pombe. Nucleic Acids Res. 1993 Apr 25;21(8):1965–1974. doi: 10.1093/nar/21.8.1965. [DOI] [PMC free article] [PubMed] [Google Scholar]
  15. Mozo T., Fischer S., Shizuya H., Altmann T. Construction and characterization of the IGF Arabidopsis BAC library. Mol Gen Genet. 1998 Jun;258(5):562–570. doi: 10.1007/s004380050769. [DOI] [PubMed] [Google Scholar]
  16. Nelson M. A., Kang S., Braun E. L., Crawford M. E., Dolan P. L., Leonard P. M., Mitchell J., Armijo A. M., Bean L., Blueyes E. Expressed sequences from conidial, mycelial, and sexual stages of Neurospora crassa. Fungal Genet Biol. 1997 Jun;21(3):348–363. doi: 10.1006/fgbi.1997.0986. [DOI] [PubMed] [Google Scholar]
  17. Orbach M. J. A cosmid with a HyR marker for fungal library construction and screening. Gene. 1994 Dec 2;150(1):159–162. doi: 10.1016/0378-1119(94)90877-x. [DOI] [PubMed] [Google Scholar]
  18. Orbach M. J., Vollrath D., Davis R. W., Yanofsky C. An electrophoretic karyotype of Neurospora crassa. Mol Cell Biol. 1988 Apr;8(4):1469–1473. doi: 10.1128/mcb.8.4.1469. [DOI] [PMC free article] [PubMed] [Google Scholar]
  19. Perkins D. D., Radford A., Newmeyer D., Björkman M. Chromosomal loci of Neurospora crassa. Microbiol Rev. 1982 Dec;46(4):426–570. doi: 10.1128/mr.46.4.426-570.1982. [DOI] [PMC free article] [PubMed] [Google Scholar]
  20. Radford A., Parish J. H. The genome and genes of Neurospora crassa. Fungal Genet Biol. 1997 Jun;21(3):258–266. doi: 10.1006/fgbi.1997.0979. [DOI] [PubMed] [Google Scholar]

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