Identification and analysis of Single Nucleotide Polymorphisms (SNPs) in the mosquito Anopheles funestus, malaria vector View Full Text


Ontology type: schema:ScholarlyArticle      Open Access: True


Article Info

DATE

2007-12

AUTHORS

Charles S Wondji, Janet Hemingway, Hilary Ranson

ABSTRACT

BACKGROUND: Single nucleotide polymorphisms (SNPs) are the most common source of genetic variation in eukaryotic species and have become an important marker for genetic studies. The mosquito Anopheles funestus is one of the major malaria vectors in Africa and yet, prior to this study, no SNPs have been described for this species. Here we report a genome-wide set of SNP markers for use in genetic studies on this important human disease vector. RESULTS: DNA fragments from 50 genes were amplified and sequenced from 21 specimens of An. funestus. A third of specimens were field collected in Malawi, a third from a colony of Mozambican origin and a third form a colony of Angolan origin. A total of 494 SNPs including 303 within the coding regions of genes and 5 indels were identified. The physical positions of these SNPs in the genome are known. There were on average 7 SNPs per kilobase similar to that observed in An. gambiae and Drosophila melanogaster. Transitions outnumbered transversions, at a ratio of 2:1. The increased frequency of transition substitutions in coding regions is likely due to the structure of the genetic code and selective constraints. Synonymous sites within coding regions showed a higher polymorphism rate than non-coding introns or 3' and 5'flanking DNA with most of the substitutions in coding regions being observed at the 3rd codon position. A positive correlation in the level of polymorphism was observed between coding and non-coding regions within a gene. By genotyping a subset of 30 SNPs, we confirmed the validity of the SNPs identified during this study. CONCLUSION: This set of SNP markers represents a useful tool for genetic studies in An. funestus, and will be useful in identifying candidate genes that affect diverse ranges of phenotypes that impact on vector control, such as resistance insecticide, mosquito behavior and vector competence. More... »

PAGES

5

Identifiers

URI

http://scigraph.springernature.com/pub.10.1186/1471-2164-8-5

DOI

http://dx.doi.org/10.1186/1471-2164-8-5

DIMENSIONS

https://app.dimensions.ai/details/publication/pub.1051790048

PUBMED

https://www.ncbi.nlm.nih.gov/pubmed/17204152


Indexing Status Check whether this publication has been indexed by Scopus and Web Of Science using the SN Indexing Status Tool
Incoming Citations Browse incoming citations for this publication using opencitations.net

JSON-LD is the canonical representation for SciGraph data.

TIP: You can open this SciGraph record using an external JSON-LD service: JSON-LD Playground Google SDTT

[
  {
    "@context": "https://springernature.github.io/scigraph/jsonld/sgcontext.json", 
    "about": [
      {
        "id": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/0604", 
        "inDefinedTermSet": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/", 
        "name": "Genetics", 
        "type": "DefinedTerm"
      }, 
      {
        "id": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/06", 
        "inDefinedTermSet": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/", 
        "name": "Biological Sciences", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Animals", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Anopheles", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Drosophila melanogaster", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Insect Vectors", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Polymerase Chain Reaction", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Polymorphism, Single Nucleotide", 
        "type": "DefinedTerm"
      }
    ], 
    "author": [
      {
        "affiliation": {
          "alternateName": "Liverpool School of Tropical Medicine", 
          "id": "https://www.grid.ac/institutes/grid.48004.38", 
          "name": [
            "Liverpool School of Tropical Medicine, Pembroke Place, L3 5QA, Liverpool, UK"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Wondji", 
        "givenName": "Charles S", 
        "id": "sg:person.01042703222.02", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01042703222.02"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "Liverpool School of Tropical Medicine", 
          "id": "https://www.grid.ac/institutes/grid.48004.38", 
          "name": [
            "Liverpool School of Tropical Medicine, Pembroke Place, L3 5QA, Liverpool, UK"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Hemingway", 
        "givenName": "Janet", 
        "id": "sg:person.0751071745.51", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0751071745.51"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "Liverpool School of Tropical Medicine", 
          "id": "https://www.grid.ac/institutes/grid.48004.38", 
          "name": [
            "Liverpool School of Tropical Medicine, Pembroke Place, L3 5QA, Liverpool, UK"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Ranson", 
        "givenName": "Hilary", 
        "id": "sg:person.01223155323.94", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01223155323.94"
        ], 
        "type": "Person"
      }
    ], 
    "citation": [
      {
        "id": "https://doi.org/10.1080/10425170500356727", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1001319765"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1080/10425170500356727", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1001319765"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1093/molbev/msh269", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1004032867"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1016/s0959-437x(00)00245-8", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1004557722"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1016/0027-5107(93)90052-h", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1006107562"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1093/jhered/esh011", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1006184831"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1534/genetics.105.044800", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1007492078"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1534/genetics.105.044800", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1007492078"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1038/10290", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1008973203", 
          "https://doi.org/10.1038/10290"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1038/10290", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1008973203", 
          "https://doi.org/10.1038/10290"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1111/j.1365-294x.2005.02754.x", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1012280451"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1111/j.1365-294x.2005.02754.x", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1012280451"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1073/pnas.96.14.7871", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1016099362"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1046/j.1365-2583.2003.00449.x", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1016209729"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1073/pnas.80.4.1048", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1017080547"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1038/356519a0", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1017374821", 
          "https://doi.org/10.1038/356519a0"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1534/genetics.103.025031", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1020309054"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1534/genetics.103.025031", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1020309054"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1093/oxfordjournals.molbev.a025563", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1023325928"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1046/j.1471-8286.2002.00290.x", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1024252882"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1093/jmedent/43.2.238", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1028487891"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1093/bioinformatics/btg359", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1030077759"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1016/s0378-1119(99)00219-x", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1031039232"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1073/pnas.94.15.7784", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1031560056"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1073/pnas.94.18.9746", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1032916407"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1111/j.0962-1075.2004.00482.x", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1034668404"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1534/genetics.105.046524", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1035128871"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1534/genetics.105.046524", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1035128871"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1186/1475-2875-4-16", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1040470815", 
          "https://doi.org/10.1186/1475-2875-4-16"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1111/j.1365-2915.2005.00574.x", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1042400552"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1111/j.1365-2915.2005.00574.x", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1042400552"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1093/nar/22.22.4673", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1042438223"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1146/annurev.ento.46.1.441", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1042458522"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1007/pl00006256", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1053154252", 
          "https://doi.org/10.1007/pl00006256"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1046/j.1365-294x.2000.00871-2.x", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1056737434"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1101/gr.gr-1780r", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1060407566"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1126/science.1076181", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1062446937"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1126/science.1076803", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1062446981"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1126/science.280.5366.1077", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1062561068"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://app.dimensions.ai/details/publication/pub.1074544770", 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://app.dimensions.ai/details/publication/pub.1074659510", 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.4269/ajtmh.2004.71.795", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1076991837"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.4269/ajtmh.1987.37.37", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1079439739"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1093/oxfordjournals.molbev.a040410", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1079750403"
        ], 
        "type": "CreativeWork"
      }
    ], 
    "datePublished": "2007-12", 
    "datePublishedReg": "2007-12-01", 
    "description": "BACKGROUND: Single nucleotide polymorphisms (SNPs) are the most common source of genetic variation in eukaryotic species and have become an important marker for genetic studies. The mosquito Anopheles funestus is one of the major malaria vectors in Africa and yet, prior to this study, no SNPs have been described for this species. Here we report a genome-wide set of SNP markers for use in genetic studies on this important human disease vector.\nRESULTS: DNA fragments from 50 genes were amplified and sequenced from 21 specimens of An. funestus. A third of specimens were field collected in Malawi, a third from a colony of Mozambican origin and a third form a colony of Angolan origin. A total of 494 SNPs including 303 within the coding regions of genes and 5 indels were identified. The physical positions of these SNPs in the genome are known. There were on average 7 SNPs per kilobase similar to that observed in An. gambiae and Drosophila melanogaster. Transitions outnumbered transversions, at a ratio of 2:1. The increased frequency of transition substitutions in coding regions is likely due to the structure of the genetic code and selective constraints. Synonymous sites within coding regions showed a higher polymorphism rate than non-coding introns or 3' and 5'flanking DNA with most of the substitutions in coding regions being observed at the 3rd codon position. A positive correlation in the level of polymorphism was observed between coding and non-coding regions within a gene. By genotyping a subset of 30 SNPs, we confirmed the validity of the SNPs identified during this study.\nCONCLUSION: This set of SNP markers represents a useful tool for genetic studies in An. funestus, and will be useful in identifying candidate genes that affect diverse ranges of phenotypes that impact on vector control, such as resistance insecticide, mosquito behavior and vector competence.", 
    "genre": "research_article", 
    "id": "sg:pub.10.1186/1471-2164-8-5", 
    "inLanguage": [
      "en"
    ], 
    "isAccessibleForFree": true, 
    "isPartOf": [
      {
        "id": "sg:journal.1023790", 
        "issn": [
          "1471-2164"
        ], 
        "name": "BMC Genomics", 
        "type": "Periodical"
      }, 
      {
        "issueNumber": "1", 
        "type": "PublicationIssue"
      }, 
      {
        "type": "PublicationVolume", 
        "volumeNumber": "8"
      }
    ], 
    "name": "Identification and analysis of Single Nucleotide Polymorphisms (SNPs) in the mosquito Anopheles funestus, malaria vector", 
    "pagination": "5", 
    "productId": [
      {
        "name": "readcube_id", 
        "type": "PropertyValue", 
        "value": [
          "f6b2ddea425481c6a59a74fc74ef7f0acc94a4557a95de2e155d74c7ff4ae66f"
        ]
      }, 
      {
        "name": "pubmed_id", 
        "type": "PropertyValue", 
        "value": [
          "17204152"
        ]
      }, 
      {
        "name": "nlm_unique_id", 
        "type": "PropertyValue", 
        "value": [
          "100965258"
        ]
      }, 
      {
        "name": "doi", 
        "type": "PropertyValue", 
        "value": [
          "10.1186/1471-2164-8-5"
        ]
      }, 
      {
        "name": "dimensions_id", 
        "type": "PropertyValue", 
        "value": [
          "pub.1051790048"
        ]
      }
    ], 
    "sameAs": [
      "https://doi.org/10.1186/1471-2164-8-5", 
      "https://app.dimensions.ai/details/publication/pub.1051790048"
    ], 
    "sdDataset": "articles", 
    "sdDatePublished": "2019-04-10T22:30", 
    "sdLicense": "https://scigraph.springernature.com/explorer/license/", 
    "sdPublisher": {
      "name": "Springer Nature - SN SciGraph project", 
      "type": "Organization"
    }, 
    "sdSource": "s3://com-uberresearch-data-dimensions-target-20181106-alternative/cleanup/v134/2549eaecd7973599484d7c17b260dba0a4ecb94b/merge/v9/a6c9fde33151104705d4d7ff012ea9563521a3ce/jats-lookup/v90/0000000001_0000000264/records_8690_00000508.jsonl", 
    "type": "ScholarlyArticle", 
    "url": "http://link.springer.com/10.1186%2F1471-2164-8-5"
  }
]
 

Download the RDF metadata as:  json-ld nt turtle xml License info

HOW TO GET THIS DATA PROGRAMMATICALLY:

JSON-LD is a popular format for linked data which is fully compatible with JSON.

curl -H 'Accept: application/ld+json' 'https://scigraph.springernature.com/pub.10.1186/1471-2164-8-5'

N-Triples is a line-based linked data format ideal for batch operations.

curl -H 'Accept: application/n-triples' 'https://scigraph.springernature.com/pub.10.1186/1471-2164-8-5'

Turtle is a human-readable linked data format.

curl -H 'Accept: text/turtle' 'https://scigraph.springernature.com/pub.10.1186/1471-2164-8-5'

RDF/XML is a standard XML format for linked data.

curl -H 'Accept: application/rdf+xml' 'https://scigraph.springernature.com/pub.10.1186/1471-2164-8-5'


 

This table displays all metadata directly associated to this object as RDF triples.

219 TRIPLES      21 PREDICATES      72 URIs      27 LITERALS      15 BLANK NODES

Subject Predicate Object
1 sg:pub.10.1186/1471-2164-8-5 schema:about N2bf17a05b04d42c3bd8190ae709c3ccb
2 N4fd04475831a4184a26a12b3f088e076
3 N6d32fe6488bc4eb684a0f724e7972faa
4 Ncbeee41f079f449aaebb997d9f77f785
5 Nebdfd5c8a8fc4b6096c4c445fd99b4e7
6 Nfb341bb810a74712a771b11329bd4027
7 anzsrc-for:06
8 anzsrc-for:0604
9 schema:author N25f473415c8943d38e2aca32e3c50099
10 schema:citation sg:pub.10.1007/pl00006256
11 sg:pub.10.1038/10290
12 sg:pub.10.1038/356519a0
13 sg:pub.10.1186/1475-2875-4-16
14 https://app.dimensions.ai/details/publication/pub.1074544770
15 https://app.dimensions.ai/details/publication/pub.1074659510
16 https://doi.org/10.1016/0027-5107(93)90052-h
17 https://doi.org/10.1016/s0378-1119(99)00219-x
18 https://doi.org/10.1016/s0959-437x(00)00245-8
19 https://doi.org/10.1046/j.1365-2583.2003.00449.x
20 https://doi.org/10.1046/j.1365-294x.2000.00871-2.x
21 https://doi.org/10.1046/j.1471-8286.2002.00290.x
22 https://doi.org/10.1073/pnas.80.4.1048
23 https://doi.org/10.1073/pnas.94.15.7784
24 https://doi.org/10.1073/pnas.94.18.9746
25 https://doi.org/10.1073/pnas.96.14.7871
26 https://doi.org/10.1080/10425170500356727
27 https://doi.org/10.1093/bioinformatics/btg359
28 https://doi.org/10.1093/jhered/esh011
29 https://doi.org/10.1093/jmedent/43.2.238
30 https://doi.org/10.1093/molbev/msh269
31 https://doi.org/10.1093/nar/22.22.4673
32 https://doi.org/10.1093/oxfordjournals.molbev.a025563
33 https://doi.org/10.1093/oxfordjournals.molbev.a040410
34 https://doi.org/10.1101/gr.gr-1780r
35 https://doi.org/10.1111/j.0962-1075.2004.00482.x
36 https://doi.org/10.1111/j.1365-2915.2005.00574.x
37 https://doi.org/10.1111/j.1365-294x.2005.02754.x
38 https://doi.org/10.1126/science.1076181
39 https://doi.org/10.1126/science.1076803
40 https://doi.org/10.1126/science.280.5366.1077
41 https://doi.org/10.1146/annurev.ento.46.1.441
42 https://doi.org/10.1534/genetics.103.025031
43 https://doi.org/10.1534/genetics.105.044800
44 https://doi.org/10.1534/genetics.105.046524
45 https://doi.org/10.4269/ajtmh.1987.37.37
46 https://doi.org/10.4269/ajtmh.2004.71.795
47 schema:datePublished 2007-12
48 schema:datePublishedReg 2007-12-01
49 schema:description BACKGROUND: Single nucleotide polymorphisms (SNPs) are the most common source of genetic variation in eukaryotic species and have become an important marker for genetic studies. The mosquito Anopheles funestus is one of the major malaria vectors in Africa and yet, prior to this study, no SNPs have been described for this species. Here we report a genome-wide set of SNP markers for use in genetic studies on this important human disease vector. RESULTS: DNA fragments from 50 genes were amplified and sequenced from 21 specimens of An. funestus. A third of specimens were field collected in Malawi, a third from a colony of Mozambican origin and a third form a colony of Angolan origin. A total of 494 SNPs including 303 within the coding regions of genes and 5 indels were identified. The physical positions of these SNPs in the genome are known. There were on average 7 SNPs per kilobase similar to that observed in An. gambiae and Drosophila melanogaster. Transitions outnumbered transversions, at a ratio of 2:1. The increased frequency of transition substitutions in coding regions is likely due to the structure of the genetic code and selective constraints. Synonymous sites within coding regions showed a higher polymorphism rate than non-coding introns or 3' and 5'flanking DNA with most of the substitutions in coding regions being observed at the 3rd codon position. A positive correlation in the level of polymorphism was observed between coding and non-coding regions within a gene. By genotyping a subset of 30 SNPs, we confirmed the validity of the SNPs identified during this study. CONCLUSION: This set of SNP markers represents a useful tool for genetic studies in An. funestus, and will be useful in identifying candidate genes that affect diverse ranges of phenotypes that impact on vector control, such as resistance insecticide, mosquito behavior and vector competence.
50 schema:genre research_article
51 schema:inLanguage en
52 schema:isAccessibleForFree true
53 schema:isPartOf N2c95095332ae483eb17944898488358b
54 Ne9f5b4f31d3f45da84552bae45d312e7
55 sg:journal.1023790
56 schema:name Identification and analysis of Single Nucleotide Polymorphisms (SNPs) in the mosquito Anopheles funestus, malaria vector
57 schema:pagination 5
58 schema:productId N43be728f6ebc4f25b48aaaad77226f26
59 N48eb48256605418a99e62c6497fb1f1b
60 N72046c6a1c15409eb9eb39f1b5d18bf4
61 N75a109e2f3294e86a687362445b08b7f
62 N7849703b118d4bc98f9654228e8ace66
63 schema:sameAs https://app.dimensions.ai/details/publication/pub.1051790048
64 https://doi.org/10.1186/1471-2164-8-5
65 schema:sdDatePublished 2019-04-10T22:30
66 schema:sdLicense https://scigraph.springernature.com/explorer/license/
67 schema:sdPublisher N7b75f4c894764944909793a69b8dbed3
68 schema:url http://link.springer.com/10.1186%2F1471-2164-8-5
69 sgo:license sg:explorer/license/
70 sgo:sdDataset articles
71 rdf:type schema:ScholarlyArticle
72 N25f473415c8943d38e2aca32e3c50099 rdf:first sg:person.01042703222.02
73 rdf:rest Nd8634e0d9f434348b06f6fc64aea6d06
74 N2bf17a05b04d42c3bd8190ae709c3ccb schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
75 schema:name Insect Vectors
76 rdf:type schema:DefinedTerm
77 N2c95095332ae483eb17944898488358b schema:issueNumber 1
78 rdf:type schema:PublicationIssue
79 N43be728f6ebc4f25b48aaaad77226f26 schema:name nlm_unique_id
80 schema:value 100965258
81 rdf:type schema:PropertyValue
82 N48eb48256605418a99e62c6497fb1f1b schema:name doi
83 schema:value 10.1186/1471-2164-8-5
84 rdf:type schema:PropertyValue
85 N4fd04475831a4184a26a12b3f088e076 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
86 schema:name Animals
87 rdf:type schema:DefinedTerm
88 N6d32fe6488bc4eb684a0f724e7972faa schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
89 schema:name Polymerase Chain Reaction
90 rdf:type schema:DefinedTerm
91 N72046c6a1c15409eb9eb39f1b5d18bf4 schema:name readcube_id
92 schema:value f6b2ddea425481c6a59a74fc74ef7f0acc94a4557a95de2e155d74c7ff4ae66f
93 rdf:type schema:PropertyValue
94 N75a109e2f3294e86a687362445b08b7f schema:name dimensions_id
95 schema:value pub.1051790048
96 rdf:type schema:PropertyValue
97 N7849703b118d4bc98f9654228e8ace66 schema:name pubmed_id
98 schema:value 17204152
99 rdf:type schema:PropertyValue
100 N7b75f4c894764944909793a69b8dbed3 schema:name Springer Nature - SN SciGraph project
101 rdf:type schema:Organization
102 Ncbeee41f079f449aaebb997d9f77f785 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
103 schema:name Polymorphism, Single Nucleotide
104 rdf:type schema:DefinedTerm
105 Nd8634e0d9f434348b06f6fc64aea6d06 rdf:first sg:person.0751071745.51
106 rdf:rest Nf61a5b1afd844f69acd2bbdec7057c7c
107 Ne9f5b4f31d3f45da84552bae45d312e7 schema:volumeNumber 8
108 rdf:type schema:PublicationVolume
109 Nebdfd5c8a8fc4b6096c4c445fd99b4e7 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
110 schema:name Drosophila melanogaster
111 rdf:type schema:DefinedTerm
112 Nf61a5b1afd844f69acd2bbdec7057c7c rdf:first sg:person.01223155323.94
113 rdf:rest rdf:nil
114 Nfb341bb810a74712a771b11329bd4027 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
115 schema:name Anopheles
116 rdf:type schema:DefinedTerm
117 anzsrc-for:06 schema:inDefinedTermSet anzsrc-for:
118 schema:name Biological Sciences
119 rdf:type schema:DefinedTerm
120 anzsrc-for:0604 schema:inDefinedTermSet anzsrc-for:
121 schema:name Genetics
122 rdf:type schema:DefinedTerm
123 sg:journal.1023790 schema:issn 1471-2164
124 schema:name BMC Genomics
125 rdf:type schema:Periodical
126 sg:person.01042703222.02 schema:affiliation https://www.grid.ac/institutes/grid.48004.38
127 schema:familyName Wondji
128 schema:givenName Charles S
129 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01042703222.02
130 rdf:type schema:Person
131 sg:person.01223155323.94 schema:affiliation https://www.grid.ac/institutes/grid.48004.38
132 schema:familyName Ranson
133 schema:givenName Hilary
134 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01223155323.94
135 rdf:type schema:Person
136 sg:person.0751071745.51 schema:affiliation https://www.grid.ac/institutes/grid.48004.38
137 schema:familyName Hemingway
138 schema:givenName Janet
139 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0751071745.51
140 rdf:type schema:Person
141 sg:pub.10.1007/pl00006256 schema:sameAs https://app.dimensions.ai/details/publication/pub.1053154252
142 https://doi.org/10.1007/pl00006256
143 rdf:type schema:CreativeWork
144 sg:pub.10.1038/10290 schema:sameAs https://app.dimensions.ai/details/publication/pub.1008973203
145 https://doi.org/10.1038/10290
146 rdf:type schema:CreativeWork
147 sg:pub.10.1038/356519a0 schema:sameAs https://app.dimensions.ai/details/publication/pub.1017374821
148 https://doi.org/10.1038/356519a0
149 rdf:type schema:CreativeWork
150 sg:pub.10.1186/1475-2875-4-16 schema:sameAs https://app.dimensions.ai/details/publication/pub.1040470815
151 https://doi.org/10.1186/1475-2875-4-16
152 rdf:type schema:CreativeWork
153 https://app.dimensions.ai/details/publication/pub.1074544770 schema:CreativeWork
154 https://app.dimensions.ai/details/publication/pub.1074659510 schema:CreativeWork
155 https://doi.org/10.1016/0027-5107(93)90052-h schema:sameAs https://app.dimensions.ai/details/publication/pub.1006107562
156 rdf:type schema:CreativeWork
157 https://doi.org/10.1016/s0378-1119(99)00219-x schema:sameAs https://app.dimensions.ai/details/publication/pub.1031039232
158 rdf:type schema:CreativeWork
159 https://doi.org/10.1016/s0959-437x(00)00245-8 schema:sameAs https://app.dimensions.ai/details/publication/pub.1004557722
160 rdf:type schema:CreativeWork
161 https://doi.org/10.1046/j.1365-2583.2003.00449.x schema:sameAs https://app.dimensions.ai/details/publication/pub.1016209729
162 rdf:type schema:CreativeWork
163 https://doi.org/10.1046/j.1365-294x.2000.00871-2.x schema:sameAs https://app.dimensions.ai/details/publication/pub.1056737434
164 rdf:type schema:CreativeWork
165 https://doi.org/10.1046/j.1471-8286.2002.00290.x schema:sameAs https://app.dimensions.ai/details/publication/pub.1024252882
166 rdf:type schema:CreativeWork
167 https://doi.org/10.1073/pnas.80.4.1048 schema:sameAs https://app.dimensions.ai/details/publication/pub.1017080547
168 rdf:type schema:CreativeWork
169 https://doi.org/10.1073/pnas.94.15.7784 schema:sameAs https://app.dimensions.ai/details/publication/pub.1031560056
170 rdf:type schema:CreativeWork
171 https://doi.org/10.1073/pnas.94.18.9746 schema:sameAs https://app.dimensions.ai/details/publication/pub.1032916407
172 rdf:type schema:CreativeWork
173 https://doi.org/10.1073/pnas.96.14.7871 schema:sameAs https://app.dimensions.ai/details/publication/pub.1016099362
174 rdf:type schema:CreativeWork
175 https://doi.org/10.1080/10425170500356727 schema:sameAs https://app.dimensions.ai/details/publication/pub.1001319765
176 rdf:type schema:CreativeWork
177 https://doi.org/10.1093/bioinformatics/btg359 schema:sameAs https://app.dimensions.ai/details/publication/pub.1030077759
178 rdf:type schema:CreativeWork
179 https://doi.org/10.1093/jhered/esh011 schema:sameAs https://app.dimensions.ai/details/publication/pub.1006184831
180 rdf:type schema:CreativeWork
181 https://doi.org/10.1093/jmedent/43.2.238 schema:sameAs https://app.dimensions.ai/details/publication/pub.1028487891
182 rdf:type schema:CreativeWork
183 https://doi.org/10.1093/molbev/msh269 schema:sameAs https://app.dimensions.ai/details/publication/pub.1004032867
184 rdf:type schema:CreativeWork
185 https://doi.org/10.1093/nar/22.22.4673 schema:sameAs https://app.dimensions.ai/details/publication/pub.1042438223
186 rdf:type schema:CreativeWork
187 https://doi.org/10.1093/oxfordjournals.molbev.a025563 schema:sameAs https://app.dimensions.ai/details/publication/pub.1023325928
188 rdf:type schema:CreativeWork
189 https://doi.org/10.1093/oxfordjournals.molbev.a040410 schema:sameAs https://app.dimensions.ai/details/publication/pub.1079750403
190 rdf:type schema:CreativeWork
191 https://doi.org/10.1101/gr.gr-1780r schema:sameAs https://app.dimensions.ai/details/publication/pub.1060407566
192 rdf:type schema:CreativeWork
193 https://doi.org/10.1111/j.0962-1075.2004.00482.x schema:sameAs https://app.dimensions.ai/details/publication/pub.1034668404
194 rdf:type schema:CreativeWork
195 https://doi.org/10.1111/j.1365-2915.2005.00574.x schema:sameAs https://app.dimensions.ai/details/publication/pub.1042400552
196 rdf:type schema:CreativeWork
197 https://doi.org/10.1111/j.1365-294x.2005.02754.x schema:sameAs https://app.dimensions.ai/details/publication/pub.1012280451
198 rdf:type schema:CreativeWork
199 https://doi.org/10.1126/science.1076181 schema:sameAs https://app.dimensions.ai/details/publication/pub.1062446937
200 rdf:type schema:CreativeWork
201 https://doi.org/10.1126/science.1076803 schema:sameAs https://app.dimensions.ai/details/publication/pub.1062446981
202 rdf:type schema:CreativeWork
203 https://doi.org/10.1126/science.280.5366.1077 schema:sameAs https://app.dimensions.ai/details/publication/pub.1062561068
204 rdf:type schema:CreativeWork
205 https://doi.org/10.1146/annurev.ento.46.1.441 schema:sameAs https://app.dimensions.ai/details/publication/pub.1042458522
206 rdf:type schema:CreativeWork
207 https://doi.org/10.1534/genetics.103.025031 schema:sameAs https://app.dimensions.ai/details/publication/pub.1020309054
208 rdf:type schema:CreativeWork
209 https://doi.org/10.1534/genetics.105.044800 schema:sameAs https://app.dimensions.ai/details/publication/pub.1007492078
210 rdf:type schema:CreativeWork
211 https://doi.org/10.1534/genetics.105.046524 schema:sameAs https://app.dimensions.ai/details/publication/pub.1035128871
212 rdf:type schema:CreativeWork
213 https://doi.org/10.4269/ajtmh.1987.37.37 schema:sameAs https://app.dimensions.ai/details/publication/pub.1079439739
214 rdf:type schema:CreativeWork
215 https://doi.org/10.4269/ajtmh.2004.71.795 schema:sameAs https://app.dimensions.ai/details/publication/pub.1076991837
216 rdf:type schema:CreativeWork
217 https://www.grid.ac/institutes/grid.48004.38 schema:alternateName Liverpool School of Tropical Medicine
218 schema:name Liverpool School of Tropical Medicine, Pembroke Place, L3 5QA, Liverpool, UK
219 rdf:type schema:Organization
 




Preview window. Press ESC to close (or click here)


...