Sequence and analysis of chromosome 2 of Dictyostelium discoideum

Gernot Glöckner; Ludwig Eichinger; Karol Szafranski; Justin A Pachebat; Alan T Bankier; Paul H Dear; Rüdiger Lehmann; Cornelia Baumgart; Genís Parra; Josep F Abril; Roderic Guigó; Kai Kumpf; Budi Tunggal; Edward Cox; Michael A Quail; Matthias Platzer; André Rosenthal; Angelika A Noegel; Bart G. Barrell; Marie-Adèle Rajandream; Jeffrey G. Williams; Robert R. Kay; Adam Kuspa; Richard Gibbs; Richard Sucgang; Donna M. Muzny; Brian Desany; Kathy Zeng; Baoli Zhu; Pieter de Jong; Theodor Dingermann; Günther Gerisch; Peter Philippsen; Michael Schleicher; Thomas Winckler

doi:10.1038/nature00847

Sequence and analysis of chromosome 2 of Dictyostelium discoideum

Gernot Glöckner, Ludwig Eichinger, Karol Szafranski, Justin A Pachebat, Alan T Bankier, Paul H Dear, Rüdiger Lehmann, Cornelia Baumgart, Genís Parra, Josep F Abril, Roderic Guigó, Kai Kumpf, Budi Tunggal, Edward Cox, Michael A Quail, Matthias Platzer, André Rosenthal, Angelika A Noegel, Bart G. Barrell, Marie-Adèle RajandreamJeffrey G. Williams, Robert R. Kay, Adam Kuspa, Richard Gibbs, Richard Sucgang, Donna M. Muzny, Brian Desany, Kathy Zeng, Baoli Zhu, Pieter de Jong, Theodor Dingermann, Günther Gerisch, Peter Philippsen, Michael Schleicher, Thomas Winckler

Department of Life Sciences

Research output: Contribution to journal › Article › peer-review

Abstract

The genome of the lower eukaryote Dictyostelium discoideum comprises six chromosomes. Here we report the sequence of the largest, chromosome 2, which at 8 megabases (Mb) represents about 25% of the genome. Despite an A + T content of nearly 80%, the chromosome codes for 2,799 predicted protein coding genes and 73 transfer RNA genes. This gene density, about 1 gene per 2.6 kilobases (kb), is surpassed only by Saccharomyces cerevisiae (one per 2 kb) and is similar to that of Schizosaccharomyces pombe (one per 2.5 kb). If we assume that the other chromosomes have a similar gene density, we can expect around 11,000 genes in the D. discoideum genome. A significant number of the genes show higher similarities to genes of vertebrates than to those of other fully sequenced eukaryotes. This analysis strengthens the view that the evolutionary position of D. discoideum is located before the branching of metazoa and fungi but after the divergence of the plant kingdom, placing it close to the base of metazoan evolution.

Original language	English
Pages (from-to)	79-85
Number of pages	7
Journal	Nature
Volume	418
Issue number	6893
DOIs	https://doi.org/10.1038/nature00847
Publication status	Published - 04 Jul 2002

Keywords

Animals
Base Composition
Chromosomes
Chromosomes, Artificial, Yeast
Dictyostelium
Evolution, Molecular
Genes, Fungal
Genes, Plant
Genes, Protozoan
Humans
Phylogeny
Physical Chromosome Mapping
Protein Structure, Tertiary
Protozoan Proteins
RNA, Transfer
Sequence Analysis, DNA
Sequence Homology
Vertebrates

Access to Document

10.1038/nature00847

Permanent link

Persistent link

Cite this

Glöckner, G., Eichinger, L., Szafranski, K., Pachebat, J. A., Bankier, A. T., Dear, P. H., Lehmann, R., Baumgart, C., Parra, G., Abril, J. F., Guigó, R., Kumpf, K., Tunggal, B., Cox, E., Quail, M. A., Platzer, M., Rosenthal, A., Noegel, A. A., Barrell, B. G., ... Winckler, T. (2002). Sequence and analysis of chromosome 2 of Dictyostelium discoideum. Nature, 418(6893), 79-85. https://doi.org/10.1038/nature00847

@article{9a2de06e1dee47d790b2e6824b7200ff,

title = "Sequence and analysis of chromosome 2 of Dictyostelium discoideum",

abstract = "The genome of the lower eukaryote Dictyostelium discoideum comprises six chromosomes. Here we report the sequence of the largest, chromosome 2, which at 8 megabases (Mb) represents about 25% of the genome. Despite an A + T content of nearly 80%, the chromosome codes for 2,799 predicted protein coding genes and 73 transfer RNA genes. This gene density, about 1 gene per 2.6 kilobases (kb), is surpassed only by Saccharomyces cerevisiae (one per 2 kb) and is similar to that of Schizosaccharomyces pombe (one per 2.5 kb). If we assume that the other chromosomes have a similar gene density, we can expect around 11,000 genes in the D. discoideum genome. A significant number of the genes show higher similarities to genes of vertebrates than to those of other fully sequenced eukaryotes. This analysis strengthens the view that the evolutionary position of D. discoideum is located before the branching of metazoa and fungi but after the divergence of the plant kingdom, placing it close to the base of metazoan evolution.",

keywords = "Animals, Base Composition, Chromosomes, Chromosomes, Artificial, Yeast, Dictyostelium, Evolution, Molecular, Genes, Fungal, Genes, Plant, Genes, Protozoan, Humans, Phylogeny, Physical Chromosome Mapping, Protein Structure, Tertiary, Protozoan Proteins, RNA, Transfer, Sequence Analysis, DNA, Sequence Homology, Vertebrates",

author = "Gernot Gl{\"o}ckner and Ludwig Eichinger and Karol Szafranski and Pachebat, {Justin A} and Bankier, {Alan T} and Dear, {Paul H} and R{\"u}diger Lehmann and Cornelia Baumgart and Gen{\'i}s Parra and Abril, {Josep F} and Roderic Guig{\'o} and Kai Kumpf and Budi Tunggal and Edward Cox and Quail, {Michael A} and Matthias Platzer and Andr{\'e} Rosenthal and Noegel, {Angelika A} and Barrell, {Bart G.} and Marie-Ad{\`e}le Rajandream and Williams, {Jeffrey G.} and Kay, {Robert R.} and Adam Kuspa and Richard Gibbs and Richard Sucgang and Muzny, {Donna M.} and Brian Desany and Kathy Zeng and Baoli Zhu and {de Jong}, Pieter and Theodor Dingermann and G{\"u}nther Gerisch and Peter Philippsen and Michael Schleicher and Thomas Winckler",

year = "2002",

month = jul,

day = "4",

doi = "10.1038/nature00847",

language = "English",

volume = "418",

pages = "79--85",

journal = "Nature",

issn = "0028-0836",

publisher = "Springer Nature",

number = "6893",

}

Glöckner, G, Eichinger, L, Szafranski, K, Pachebat, JA, Bankier, AT, Dear, PH, Lehmann, R, Baumgart, C, Parra, G, Abril, JF, Guigó, R, Kumpf, K, Tunggal, B, Cox, E, Quail, MA, Platzer, M, Rosenthal, A, Noegel, AA, Barrell, BG, Rajandream, M-A, Williams, JG, Kay, RR, Kuspa, A, Gibbs, R, Sucgang, R, Muzny, DM, Desany, B, Zeng, K, Zhu, B, de Jong, P, Dingermann, T, Gerisch, G, Philippsen, P, Schleicher, M & Winckler, T 2002, 'Sequence and analysis of chromosome 2 of Dictyostelium discoideum', Nature, vol. 418, no. 6893, pp. 79-85. https://doi.org/10.1038/nature00847

TY - JOUR

T1 - Sequence and analysis of chromosome 2 of Dictyostelium discoideum

AU - Glöckner, Gernot

AU - Eichinger, Ludwig

AU - Szafranski, Karol

AU - Pachebat, Justin A

AU - Bankier, Alan T

AU - Dear, Paul H

AU - Lehmann, Rüdiger

AU - Baumgart, Cornelia

AU - Parra, Genís

AU - Abril, Josep F

AU - Guigó, Roderic

AU - Kumpf, Kai

AU - Tunggal, Budi

AU - Cox, Edward

AU - Quail, Michael A

AU - Platzer, Matthias

AU - Rosenthal, André

AU - Noegel, Angelika A

AU - Barrell, Bart G.

AU - Rajandream, Marie-Adèle

AU - Williams, Jeffrey G.

AU - Kay, Robert R.

AU - Kuspa, Adam

AU - Gibbs, Richard

AU - Sucgang, Richard

AU - Muzny, Donna M.

AU - Desany, Brian

AU - Zeng, Kathy

AU - Zhu, Baoli

AU - de Jong, Pieter

AU - Dingermann, Theodor

AU - Gerisch, Günther

AU - Philippsen, Peter

AU - Schleicher, Michael

AU - Winckler, Thomas

PY - 2002/7/4

Y1 - 2002/7/4

N2 - The genome of the lower eukaryote Dictyostelium discoideum comprises six chromosomes. Here we report the sequence of the largest, chromosome 2, which at 8 megabases (Mb) represents about 25% of the genome. Despite an A + T content of nearly 80%, the chromosome codes for 2,799 predicted protein coding genes and 73 transfer RNA genes. This gene density, about 1 gene per 2.6 kilobases (kb), is surpassed only by Saccharomyces cerevisiae (one per 2 kb) and is similar to that of Schizosaccharomyces pombe (one per 2.5 kb). If we assume that the other chromosomes have a similar gene density, we can expect around 11,000 genes in the D. discoideum genome. A significant number of the genes show higher similarities to genes of vertebrates than to those of other fully sequenced eukaryotes. This analysis strengthens the view that the evolutionary position of D. discoideum is located before the branching of metazoa and fungi but after the divergence of the plant kingdom, placing it close to the base of metazoan evolution.

AB - The genome of the lower eukaryote Dictyostelium discoideum comprises six chromosomes. Here we report the sequence of the largest, chromosome 2, which at 8 megabases (Mb) represents about 25% of the genome. Despite an A + T content of nearly 80%, the chromosome codes for 2,799 predicted protein coding genes and 73 transfer RNA genes. This gene density, about 1 gene per 2.6 kilobases (kb), is surpassed only by Saccharomyces cerevisiae (one per 2 kb) and is similar to that of Schizosaccharomyces pombe (one per 2.5 kb). If we assume that the other chromosomes have a similar gene density, we can expect around 11,000 genes in the D. discoideum genome. A significant number of the genes show higher similarities to genes of vertebrates than to those of other fully sequenced eukaryotes. This analysis strengthens the view that the evolutionary position of D. discoideum is located before the branching of metazoa and fungi but after the divergence of the plant kingdom, placing it close to the base of metazoan evolution.

KW - Animals

KW - Base Composition

KW - Chromosomes

KW - Chromosomes, Artificial, Yeast

KW - Dictyostelium

KW - Evolution, Molecular

KW - Genes, Fungal

KW - Genes, Plant

KW - Genes, Protozoan

KW - Humans

KW - Phylogeny

KW - Physical Chromosome Mapping

KW - Protein Structure, Tertiary

KW - Protozoan Proteins

KW - RNA, Transfer

KW - Sequence Analysis, DNA

KW - Sequence Homology

KW - Vertebrates

UR - http://hdl.handle.net/2160/36334

U2 - 10.1038/nature00847

DO - 10.1038/nature00847

M3 - Article

C2 - 12097910

SN - 0028-0836

VL - 418

SP - 79

EP - 85

JO - Nature

JF - Nature

IS - 6893

ER -

Sequence and analysis of chromosome 2 of Dictyostelium discoideum

Abstract

Keywords

Access to Document

Permanent link

Other files and links

Fingerprint

Cite this