Open Access Highly Accessed Research article

SNP discovery and molecular evolution in Anopheles gambiae, with special emphasis on innate immune system

Anna Cohuet1*, Sujatha Krishnakumar2, Frédéric Simard13, Isabelle Morlais13, Anastasios Koutsos45, Didier Fontenille1, Michael Mindrinos2 and Fotis C Kafatos4*

Author Affiliations

1 Institut de Recherche pour le Développement, UR 016, BP 64501, 911 Avenue Agropolis, 34394 Montpellier Cedex 5, France

2 Stanford Genome Technology Center, 855 California Avenue, Palo Alto CA 94304, USA

3 Organisation de Coordination pour la lutte contre les Endémies en Afrique Centrale, Laboratoire de Recherche sur le Paludisme, BP 288, Yaounde, Cameroon

4 Imperial College London, Division of Cell and Molecular Biology, Sir Alexander Fleming Building, South Kensington Campus, London, SW7 2AZ, UK

5 BMC-series Journals, BioMed Central, Middlesex House, 34-42 Cleveland Street, London W1T 4LB, UK

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BMC Genomics 2008, 9:227  doi:10.1186/1471-2164-9-227

Published: 19 May 2008

Additional files

Additional file 1:

Characteristics of locus amplified for SNP detection in coding regions of immune related genes. *: 1: Recognition, 2: Modulation, 3: Signal transduction, 4: Effector molecules according to Christophides et al [5]

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Additional file 2:

Characteristics of locus amplified for SNP detection in coding regions of non immune related genes.

Format: XLS Size: 46KB Download file

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Additional file 3:

Nucleotide polymorphism in immune related genes. SS: number of segregating sites. ISS: number of informative sites (polymorphisms found more than once in the dataset). nsSNP: number of non synonymous SNPs. π: nucleotide diversity considering all sites. πs: nucleotide diversity considering synomymous sites only. πns: nucleotide diversity considering non-synomymous sites only. θw: the proportion of segregating site. Tajima's D test: D value, significant values are in bold characters if P < 0.05, and bold and underlined characters if P < 0.01. Z test of selection: test for purifying selection (Nei and Gojobori method)._: data not available due to a failure of sequencing or lack of polymorphism.

Format: XLS Size: 82KB Download file

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Additional file 4:

Nucleotide polymorphism in non immune related genes. SS: number of segregating sites. ISS: number of informative sites (polymorphisms found more than once in the dataset). nsSNP: number of non synonymous SNPs. π: nucleotide diversity considering all sites. πs: nucleotide diversity considering synomymous sites only. πns: nucleotide diversity considering non-synomymous sites only. θw: the proportion of segregating site. Tajima's D test: D value, significant values are in bold characters if P < 0.05, and bold and underlined characters if P < 0.01. Z test of selection: test for purifying selection (Nei and Gojobori method)._: data not available due to a failure of sequencing or lack of polymorphism.

Format: XLS Size: 62KB Download file

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Additional file 5:

Divergence between populations detected on immune related genes. Polymorphic sites: number of polymorphic sites within populations. Fixed sites: number of fixed divergence between populations. _: data not available due to a failure of sequencing.

Format: XLS Size: 30KB Download file

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Additional file 6:

Divergence between populations detected on non immune related genes. Polymorphic sites: number of polymorphic sites within populations. Fixed sites: number of fixed divergence between populations. _: data not available due to a failure of sequencing.

Format: XLS Size: 41KB Download file

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Open Data