Note to users. If you're seeing this message, it means that your browser cannot find this page's style/presentation instructions -- or possibly that you are using a browser that does not support current Web standards. Find out more about why this message is appearing, and what you can do to make your experience of our site the best it can be.

Science 24 March 2000:
Vol. 287. no. 5461, pp. 2271 - 2274
DOI: 10.1126/science.287.5461.2271
Prev | Table of Contents | Next

Reports

A BAC-Based Physical Map of the Major Autosomes of Drosophila melanogaster

Roger A. Hoskins, 1* Catherine R. Nelson, 2 Benjamin P. Berman, 2 Todd R. Laverty, 2 Reed A. George, 1 Lisa Ciesiolka, 1 Mohammed Naeemuddin, 1 Andrew D. Arenson, 3 James Durbin, 3 Robert G. David, 3 Paul E. Tabor, 3 Michael R. Bailey, 3 Denise R. DeShazo, 3 Joseph Catanese, 4 †‡ Aaron Mammoser, 4 Kazutoyo Osoegawa, 4 † Pieter J. de Jong , 4 †‡ Susan E. Celniker, 1 Richard A. Gibbs, 3 Gerald M. Rubin, 2 Steven E. Scherer 3

We constructed a bacterial artificial chromosome (BAC)-based physical map of chromosomes 2 and 3 of Drosophila melanogaster, which constitute 81% of the genome. Sequence tagged site (STS) content, restriction fingerprinting, and polytene chromosome in situ hybridization approaches were integrated to produce a map spanning the euchromatin. Three of five remaining gaps are in repeat-rich regions near the centromeres. A tiling path of clones spanning this map and STS maps of chromosomes X and 4 was sequenced to low coverage; the maps and tiling path sequence were used to support and verify the whole-genome sequence assembly, and tiling path BACs were used as templates in sequence finishing.

1 Berkeley Drosophila Genome Project, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, USA.
2 Berkeley Drosophila Genome Project, Department of Molecular and Cell Biology, University of California, Berkeley, CA 94720, USA.
3 Human Genome Sequencing Center, Baylor College of Medicine, Houston, TX 77030, USA.
4 Department of Cancer Genetics, Roswell Park Cancer Institute, Buffalo, NY 14263, USA.
*   To whom correspondence should be addressed. E-mail: hoskins{at}bdgp.lbl.gov

Read the Full Text


THIS ARTICLE HAS BEEN CITED BY OTHER ARTICLES:
SHARCGS, a fast and highly accurate short-read assembly algorithm for de novo genomic sequencing.
J. C. Dohm, C. Lottaz, T. Borodina, and H. Himmelbauer (2007)
Genome Res. 17, 1697-1706
   Abstract »    Full Text »    PDF »
The testis-specific proteasome subunit Pros{alpha}6T of D. melanogaster is required for individualization and nuclear maturation during spermatogenesis.
L. Zhong and J. M. Belote (2007)
Development 134, 3517-3525
   Abstract »    Full Text »    PDF »
Rapid effects of acute anoxia on spindle kinetochore interactions activate the mitotic spindle checkpoint.
R. Pandey, S. Heeger, and C. F. Lehner (2007)
J. Cell Sci. 120, 2807-2818
   Abstract »    Full Text »    PDF »
Sequence Finishing and Mapping of Drosophila melanogaster Heterochromatin.
R. A. Hoskins, J. W. Carlson, C. Kennedy, D. Acevedo, M. Evans-Holm, E. Frise, K. H. Wan, S. Park, M. Mendez-Lago, F. Rossi, et al. (2007)
Science 316, 1625-1628
   Abstract »    Full Text »    PDF »
P[acman]: A BAC Transgenic Platform for Targeted Insertion of Large DNA Fragments in D. melanogaster.
K. J. T. Venken, Y. He, R. A. Hoskins, and H. J. Bellen (2006)
Science 314, 1747-1751
   Abstract »    Full Text »    PDF »
A Genetic Suppressor of Two Dominant Temperature-Sensitive Lethal Proteasome Mutants of Drosophila melanogaster Is Itself a Mutated Proteasome Subunit Gene.
P. J. Neuburger, K. J. Saville, J. Zeng, K.-A. Smyth, and J. M. Belote (2006)
Genetics 173, 1377-1387
   Abstract »    Full Text »    PDF »
Analysis of Pyrimidine Catabolism in Drosophila melanogaster Using Epistatic Interactions With Mutations of Pyrimidine Biosynthesis and {beta}-Alanine Metabolism.
J. M. Rawls Jr. (2006)
Genetics 172, 1665-1674
   Abstract »    Full Text »    PDF »
Drosophila melanogaster: A case study of a model genomic sequence and its consequences.
M. Ashburner and C. M. Bergman (2005)
Genome Res. 15, 1661-1667
   Abstract »    Full Text »    PDF »
Genetic interactions of separase regulatory subunits reveal the diverged Drosophila Cenp-C homolog.
S. Heeger, O. Leismann, R. Schittenhelm, O. Schraidt, S. Heidmann, and C. F. Lehner (2005)
Genes & Dev. 19, 2041-2053
   Abstract »    Full Text »    PDF »
Genomics of Basal Metazoans.
R. E. Steele (2005)
Integr. Comp. Biol. 45, 639-648
   Abstract »    Full Text »    PDF »
A BAC-based physical map of the Drosophila buzzatii genome.
J. Gonzalez, M. Nefedov, I. Bosdet, F. Casals, O. Calvete, A. Delprat, H. Shin, R. Chiu, C. Mathewson, N. Wye, et al. (2005)
Genome Res. 15, 885-892
   Abstract »    Full Text »    PDF »
Genome physical mapping from large-insert clones by fingerprint analysis with capillary electrophoresis: a robust physical map of Penicillium chrysogenum.
Z. Xu, M. A. van den Berg, C. Scheuring, L. Covaleda, H. Lu, F. A. Santos, T. Uhm, M.-K. Lee, C. Wu, S. Liu, et al. (2005)
Nucleic Acids Res. 33, e50
   Abstract »    Full Text »    PDF »
Meiotic Recombination in Drosophila Females Depends on Chromosome Continuity Between Genetically Defined Boundaries.
D. Sherizen, J. K. Jang, R. Bhagat, N. Kato, and K. S. McKim (2005)
Genetics 169, 767-781
   Abstract »    Full Text »    PDF »
Characterization of the grappa Gene, the Drosophila Histone H3 Lysine 79 Methyltransferase.
G. A. Shanower, M. Muller, J. L. Blanton, V. Honti, H. Gyurkovics, and P. Schedl (2005)
Genetics 169, 173-184
   Abstract »    Full Text »    PDF »
The S6KII (rsk) Gene of Drosophila melanogaster Differentially Affects an Operant and a Classical Learning Task.
G. Putz, F. Bertolucci, T. Raabe, T. Zars, and M. Heisenberg (2004)
J. Neurosci. 24, 9745-9751
   Abstract »    Full Text »    PDF »
Integrated and Sequence-Ordered BAC- and YAC-Based Physical Maps for the Rat Genome.
M. Krzywinski, J. Wallis, C. Gosele, I. Bosdet, R. Chiu, T. Graves, O. Hummel, D. Layman, C. Mathewson, N. Wye, et al. (2004)
Genome Res. 14, 766-779
   Abstract »    Full Text »    PDF »
Genetic and Bioinformatic Analysis of 41C and the 2R Heterochromatin of Drosophila melanogaster: A Window on the Heterochromatin-Euchromatin Junction.
S. H. Myster, F. Wang, R. Cavallo, W. Christian, S. Bhotika, C. T. Anderson, and M. Peifer (2004)
Genetics 166, 807-822
   Abstract »    Full Text »    PDF »
A BAC- and BIBAC-Based Physical Map of the Soybean Genome.
C. Wu, S. Sun, P. Nimmakayala, F. A. Santos, K. Meksem, R. Springman, K. Ding, D. A. Lightfoot, and H.-B. Zhang (2004)
Genome Res. 14, 319-326
   Abstract »    Full Text »    PDF »
Locating Sequence on FPC Maps and Selecting a Minimal Tiling Path.
F. W. Engler, J. Hatfield, W. Nelson, and C. A. Soderlund (2003)
Genome Res. 13, 2152-2163
   Abstract »    Full Text »    PDF »
Software for Automated Analysis of DNA Fingerprinting Gels.
D. R. Fuhrmann, M. I. Krzywinski, R. Chiu, P. Saeedi, J. E. Schein, I. E. Bosdet, A. Chinwalla, L. W. Hillier, R. H. Waterston, J. D. McPherson, et al. (2003)
Genome Res. 13, 940-953
   Abstract »    Full Text »    PDF »
Colonization of Heterochromatic Genes by Transposable Elements in Drosophila.
P. Dimitri, N. Junakovic, and B. Arca (2003)
Mol. Biol. Evol. 20, 503-512
   Abstract »    Full Text »    PDF »
Highly Efficient Modification of Bacterial Artificial Chromosomes (BACs) Using Novel Shuttle Vectors Containing the R6Kgamma Origin of Replication.
S. Gong, X. W. Yang, C. Li, and N. Heintz (2002)
Genome Res. 12, 1992-1998
   Abstract »    Full Text »    PDF »
Programmed cell death takes flight: genetic and genomic approaches to gene discovery in Drosophila.
S. Gorski and M. Marra (2002)
Physiol Genomics 9, 59-69
   Abstract »    Full Text »    PDF »
Analysis of Conserved Noncoding DNA in Drosophila Reveals Similar Constraints in Intergenic and Intronic Sequences.
C. M. Bergman and M. Kreitman (2001)
Genome Res. 11, 1335-1345
   Abstract »    Full Text »    PDF »
Bacterial Artificial Chromosome-Based Physical Map of the Rice Genome Constructed by Restriction Fingerprint Analysis.
Q. Tao, Y.-L. Chang, J. Wang, H. Chen, M. N. Islam-Faridi, C. Scheuring, B. Wang, D. M. Stelly, and H.-B. Zhang (2001)
Genetics 158, 1711-1724
   Abstract »    Full Text »    PDF »
From First Base: The Sequence of the Tip of the X Chromosome of Drosophila melanogaster, a Comparison of Two Sequencing Strategies.
P. V. Benos, M. K. Gatt, L. Murphy, D. Harris, B. Barrell, C. Ferraz, S. Vidal, C. Brun, J. Demaille, E. Cadieu, et al. (2001)
Genome Res. 11, 710-730
   Abstract »    Full Text »
A Bacterial Artificial Chromosome Library for Sequencing the Complete Human Genome.
K. Osoegawa, A. G. Mammoser, C. Wu, E. Frengen, C. Zeng, J. J. Catanese, and P. J. de Jong (2001)
Genome Res. 11, 483-496
   Abstract »    Full Text »
A Physical Map of the Polytenized Region (101EF-102F) of Chromosome 4 in Drosophila melanogaster.
J. Locke, L. Podemski, N. Aippersbach, H. Kemp, and R. Hodgetts (2000)
Genetics 155, 1175-1183
   Abstract »    Full Text »
The Genome Sequence of Drosophila melanogaster.
M. D. Adams, S. E. Celniker, R. A. Holt, C. A. Evans, J. D. Gocayne, P. G. Amanatides, S. E. Scherer, P. W. Li, R. A. Hoskins, R. F. Galle, et al. (2000)
Science 287, 2185-2195
   Abstract »    Full Text »
The Drosophila Genome Sequence: Implications for Biology and Medicine.
T. B. Kornberg and a. M. A. Krasnow (2000)
Science 287, 2218-2220
   Abstract »    Full Text »
From Sequence to Chromosome: The Tip of the X Chromosome of D. melanogaster.
P. V. Benos, M. K. Gatt, M. Ashburner, L. Murphy, D. Harris, B. Barrell, C. Ferraz, S. Vidal, C. Brun, J. Demailles, et al. (2000)
Science 287, 2220-2222
   Abstract »    Full Text »
Contigs Built with Fingerprints, Markers, and FPC V4.7.
C. Soderlund, S. Humphray, A. Dunham, and L. French (2000)
Genome Res. 10, 1772-1787
   Abstract »    Full Text »


To Advertise     Find Products

Science. ISSN 0036-8075 (print), 1095-9203 (online)