Identification of Indian Spiders through DNA barcoding: Cryptic species and species complex
Spiders are mega diverse arthropods and play an important role in the ecosystem. Identification of this group is challenging due to their cryptic behavior, sexual dimorphism, and unavailability of taxonomic keys for juveniles. To overcome these obstacles, DNA barcoding plays a pivotal role in spider...
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description | Spiders are mega diverse arthropods and play an important role in the ecosystem. Identification of this group is challenging due to their cryptic behavior, sexual dimorphism, and unavailability of taxonomic keys for juveniles. To overcome these obstacles, DNA barcoding plays a pivotal role in spider identification throughout the globe. This study is the first large scale attempt on DNA barcoding of spiders from India with 101 morphospecies of 72 genera under 21 families, including five endemic species and holotypes of three species. A total of 489 barcodes was generated and analyzed, among them 85 novel barcodes of 22 morphospecies were contributed to the global database. The estimated delimitation threshold of the Indian spiders was 2.6% to 3.7% K2P corrected pairwise distance. The multiple species delimitation methods (BIN, ABGD, GMYC and PTP) revealed a total of 107 molecular operational taxonomic units (MOTUs) for 101 morphospecies. We detected more than one MOTU in 11 morphospecies with discrepancies in genetic distances and tree topologies. Cryptic diversity was detected in
Pardosa pusiola
,
Cyclosa spirifera
, and
Heteropoda venatoria
. The intraspecies distances which were as large as our proposed delimitation threshold were observed in
Pardosa sumatrana
,
Thiania bhamoensis
, and
Cheiracanthium triviale
. Further, shallow genetic distances were detected in
Cyrtophora cicatrosa
,
Hersilia savignyi
,
Argiope versicolor
,
Phintella vittata
, and
Oxyopes birmanicus
. Two morphologically distinguished species (
Plexippus paykulli
and
Plexippus petersi
) showed intra-individual variation within their DNA barcode data. Additionally, we reinstate the original combination for
Linyphia sikkimensis
based on both morphology and DNA barcoding. These data show that DNA barcoding is a valuable tool for specimen identification and species discovery of Indian spiders. |
doi_str_mv | 10.1038/s41598-019-50510-8 |
format | Article |
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Pardosa pusiola
,
Cyclosa spirifera
, and
Heteropoda venatoria
. The intraspecies distances which were as large as our proposed delimitation threshold were observed in
Pardosa sumatrana
,
Thiania bhamoensis
, and
Cheiracanthium triviale
. Further, shallow genetic distances were detected in
Cyrtophora cicatrosa
,
Hersilia savignyi
,
Argiope versicolor
,
Phintella vittata
, and
Oxyopes birmanicus
. Two morphologically distinguished species (
Plexippus paykulli
and
Plexippus petersi
) showed intra-individual variation within their DNA barcode data. Additionally, we reinstate the original combination for
Linyphia sikkimensis
based on both morphology and DNA barcoding. These data show that DNA barcoding is a valuable tool for specimen identification and species discovery of Indian spiders.</description><identifier>ISSN: 2045-2322</identifier><identifier>EISSN: 2045-2322</identifier><identifier>DOI: 10.1038/s41598-019-50510-8</identifier><identifier>PMID: 31575965</identifier><language>eng</language><publisher>London: Nature Publishing Group UK</publisher><subject>14 ; 45/22 ; 45/23 ; 45/29 ; 631/181/2480 ; 631/601/1466 ; Animals ; Araneae ; Classification ; Cryptic species ; Deoxyribonucleic acid ; DNA ; DNA - genetics ; DNA Barcoding, Taxonomic - methods ; Endemic species ; Female ; Genera ; Genetic distance ; Haplotypes ; Holotypes ; Humanities and Social Sciences ; Identification ; India ; Male ; multidisciplinary ; Phylogeny ; Polymerase Chain Reaction ; Science ; Science (multidisciplinary) ; Sexual behavior ; Sexual dimorphism ; Spiders ; Spiders - anatomy & histology ; Spiders - classification ; Spiders - genetics ; Taxonomy</subject><ispartof>Scientific reports, 2019-10, Vol.9 (1), p.14033-13, Article 14033</ispartof><rights>The Author(s) 2019</rights><rights>2019. This work is published under http://creativecommons.org/licenses/by/4.0/ (the “License”). Notwithstanding the ProQuest Terms and Conditions, you may use this content in accordance with the terms of the License.</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c474t-ca43b7e283729f63708309daa6ba73eaf4e35dcfc4ff543a4ee27056cee9a0ce3</citedby><cites>FETCH-LOGICAL-c474t-ca43b7e283729f63708309daa6ba73eaf4e35dcfc4ff543a4ee27056cee9a0ce3</cites><orcidid>0000-0002-0215-0120 ; 0000-0003-1064-9826 ; 0000-0002-5488-4433 ; 0000-0001-9076-5442</orcidid></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC6773733/pdf/$$EPDF$$P50$$Gpubmedcentral$$Hfree_for_read</linktopdf><linktohtml>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC6773733/$$EHTML$$P50$$Gpubmedcentral$$Hfree_for_read</linktohtml><link.rule.ids>230,314,723,776,780,860,881,27903,27904,41099,42168,51555,53770,53772</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/31575965$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Tyagi, Kaomud</creatorcontrib><creatorcontrib>Kumar, Vikas</creatorcontrib><creatorcontrib>Kundu, Shantanu</creatorcontrib><creatorcontrib>Pakrashi, Avas</creatorcontrib><creatorcontrib>Prasad, Priya</creatorcontrib><creatorcontrib>Caleb, John T. D.</creatorcontrib><creatorcontrib>Chandra, Kailash</creatorcontrib><title>Identification of Indian Spiders through DNA barcoding: Cryptic species and species complex</title><title>Scientific reports</title><addtitle>Sci Rep</addtitle><addtitle>Sci Rep</addtitle><description>Spiders are mega diverse arthropods and play an important role in the ecosystem. Identification of this group is challenging due to their cryptic behavior, sexual dimorphism, and unavailability of taxonomic keys for juveniles. To overcome these obstacles, DNA barcoding plays a pivotal role in spider identification throughout the globe. This study is the first large scale attempt on DNA barcoding of spiders from India with 101 morphospecies of 72 genera under 21 families, including five endemic species and holotypes of three species. A total of 489 barcodes was generated and analyzed, among them 85 novel barcodes of 22 morphospecies were contributed to the global database. The estimated delimitation threshold of the Indian spiders was 2.6% to 3.7% K2P corrected pairwise distance. The multiple species delimitation methods (BIN, ABGD, GMYC and PTP) revealed a total of 107 molecular operational taxonomic units (MOTUs) for 101 morphospecies. We detected more than one MOTU in 11 morphospecies with discrepancies in genetic distances and tree topologies. Cryptic diversity was detected in
Pardosa pusiola
,
Cyclosa spirifera
, and
Heteropoda venatoria
. The intraspecies distances which were as large as our proposed delimitation threshold were observed in
Pardosa sumatrana
,
Thiania bhamoensis
, and
Cheiracanthium triviale
. Further, shallow genetic distances were detected in
Cyrtophora cicatrosa
,
Hersilia savignyi
,
Argiope versicolor
,
Phintella vittata
, and
Oxyopes birmanicus
. Two morphologically distinguished species (
Plexippus paykulli
and
Plexippus petersi
) showed intra-individual variation within their DNA barcode data. Additionally, we reinstate the original combination for
Linyphia sikkimensis
based on both morphology and DNA barcoding. These data show that DNA barcoding is a valuable tool for specimen identification and species discovery of Indian spiders.</description><subject>14</subject><subject>45/22</subject><subject>45/23</subject><subject>45/29</subject><subject>631/181/2480</subject><subject>631/601/1466</subject><subject>Animals</subject><subject>Araneae</subject><subject>Classification</subject><subject>Cryptic species</subject><subject>Deoxyribonucleic acid</subject><subject>DNA</subject><subject>DNA - genetics</subject><subject>DNA Barcoding, Taxonomic - methods</subject><subject>Endemic species</subject><subject>Female</subject><subject>Genera</subject><subject>Genetic distance</subject><subject>Haplotypes</subject><subject>Holotypes</subject><subject>Humanities and Social Sciences</subject><subject>Identification</subject><subject>India</subject><subject>Male</subject><subject>multidisciplinary</subject><subject>Phylogeny</subject><subject>Polymerase Chain Reaction</subject><subject>Science</subject><subject>Science (multidisciplinary)</subject><subject>Sexual behavior</subject><subject>Sexual dimorphism</subject><subject>Spiders</subject><subject>Spiders - anatomy & histology</subject><subject>Spiders - classification</subject><subject>Spiders - genetics</subject><subject>Taxonomy</subject><issn>2045-2322</issn><issn>2045-2322</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2019</creationdate><recordtype>article</recordtype><sourceid>C6C</sourceid><sourceid>EIF</sourceid><sourceid>ABUWG</sourceid><sourceid>AFKRA</sourceid><sourceid>AZQEC</sourceid><sourceid>BENPR</sourceid><sourceid>CCPQU</sourceid><sourceid>DWQXO</sourceid><sourceid>GNUQQ</sourceid><recordid>eNp9kT1vFDEQhq0IlEQhfyBFZImGZsGf6zUFUnR8nRRBkVBRWD7v-M7Rnr2xdyPy7zFcOEIKppmR5pnXfvUidEbJa0p496YIKnXXEKobSSQlTXeAjhkRsmGcsWeP5iN0WsoNqSWZFlQfoiNOpZK6lcfo-7KHOAUfnJ1Cijh5vIx9sBFfjaGHXPC0yWleb_D7Lxd4ZbNLfYjrt3iR78cpOFxGcAEKtrHfzy5txwF-vEDPvR0KnD70E_Tt44frxefm8uun5eLisnFCialxVvCVAtZxxbRvuSIdJ7q3tl1ZxcF6AVz2zjvhvRTcCgCmiGwdgLbEAT9B73a647zaQu-qoWwHM-awtfneJBvMv5sYNmad7kyrFFecV4FXDwI53c5QJrMNxcEw2AhpLoZxQqjSXUcr-vIJepPmHKs9w5jWSmipWKXYjnI5lZLB7z9DifkVn9nFZ2p85nd8pqtH549t7E_-hFUBvgNKXcU15L9v_0f2J15BpvQ</recordid><startdate>20191001</startdate><enddate>20191001</enddate><creator>Tyagi, Kaomud</creator><creator>Kumar, Vikas</creator><creator>Kundu, Shantanu</creator><creator>Pakrashi, Avas</creator><creator>Prasad, Priya</creator><creator>Caleb, John T. 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D. ; Chandra, Kailash</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c474t-ca43b7e283729f63708309daa6ba73eaf4e35dcfc4ff543a4ee27056cee9a0ce3</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2019</creationdate><topic>14</topic><topic>45/22</topic><topic>45/23</topic><topic>45/29</topic><topic>631/181/2480</topic><topic>631/601/1466</topic><topic>Animals</topic><topic>Araneae</topic><topic>Classification</topic><topic>Cryptic species</topic><topic>Deoxyribonucleic acid</topic><topic>DNA</topic><topic>DNA - genetics</topic><topic>DNA Barcoding, Taxonomic - methods</topic><topic>Endemic species</topic><topic>Female</topic><topic>Genera</topic><topic>Genetic distance</topic><topic>Haplotypes</topic><topic>Holotypes</topic><topic>Humanities and Social Sciences</topic><topic>Identification</topic><topic>India</topic><topic>Male</topic><topic>multidisciplinary</topic><topic>Phylogeny</topic><topic>Polymerase Chain Reaction</topic><topic>Science</topic><topic>Science (multidisciplinary)</topic><topic>Sexual behavior</topic><topic>Sexual dimorphism</topic><topic>Spiders</topic><topic>Spiders - anatomy & histology</topic><topic>Spiders - classification</topic><topic>Spiders - genetics</topic><topic>Taxonomy</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Tyagi, Kaomud</creatorcontrib><creatorcontrib>Kumar, Vikas</creatorcontrib><creatorcontrib>Kundu, Shantanu</creatorcontrib><creatorcontrib>Pakrashi, Avas</creatorcontrib><creatorcontrib>Prasad, Priya</creatorcontrib><creatorcontrib>Caleb, John T. D.</creatorcontrib><creatorcontrib>Chandra, Kailash</creatorcontrib><collection>Springer Nature OA Free Journals</collection><collection>Medline</collection><collection>MEDLINE</collection><collection>MEDLINE (Ovid)</collection><collection>MEDLINE</collection><collection>MEDLINE</collection><collection>PubMed</collection><collection>CrossRef</collection><collection>ProQuest Central (Corporate)</collection><collection>Health & Medical Collection</collection><collection>ProQuest Central (purchase pre-March 2016)</collection><collection>Biology Database (Alumni Edition)</collection><collection>Medical Database (Alumni Edition)</collection><collection>Science Database (Alumni Edition)</collection><collection>ProQuest SciTech Collection</collection><collection>ProQuest Natural Science Collection</collection><collection>Hospital Premium Collection</collection><collection>Hospital Premium Collection (Alumni Edition)</collection><collection>ProQuest Central (Alumni) (purchase pre-March 2016)</collection><collection>ProQuest Central (Alumni Edition)</collection><collection>ProQuest One Sustainability</collection><collection>ProQuest Central UK/Ireland</collection><collection>ProQuest Central Essentials</collection><collection>Biological Science Collection</collection><collection>ProQuest Central</collection><collection>Natural Science Collection</collection><collection>ProQuest One Community College</collection><collection>ProQuest Central Korea</collection><collection>Health Research Premium Collection</collection><collection>Health Research Premium Collection (Alumni)</collection><collection>ProQuest Central Student</collection><collection>SciTech Premium Collection</collection><collection>ProQuest Health & Medical Complete (Alumni)</collection><collection>ProQuest Biological Science Collection</collection><collection>Health & Medical Collection (Alumni Edition)</collection><collection>Medical Database</collection><collection>Science Database</collection><collection>Biological Science Database</collection><collection>Publicly Available Content Database</collection><collection>ProQuest One Academic Eastern Edition (DO NOT USE)</collection><collection>ProQuest One Academic</collection><collection>ProQuest One Academic UKI Edition</collection><collection>ProQuest Central China</collection><collection>ProQuest Central Basic</collection><collection>MEDLINE - Academic</collection><collection>PubMed Central (Full Participant titles)</collection><jtitle>Scientific reports</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Tyagi, Kaomud</au><au>Kumar, Vikas</au><au>Kundu, Shantanu</au><au>Pakrashi, Avas</au><au>Prasad, Priya</au><au>Caleb, John T. D.</au><au>Chandra, Kailash</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Identification of Indian Spiders through DNA barcoding: Cryptic species and species complex</atitle><jtitle>Scientific reports</jtitle><stitle>Sci Rep</stitle><addtitle>Sci Rep</addtitle><date>2019-10-01</date><risdate>2019</risdate><volume>9</volume><issue>1</issue><spage>14033</spage><epage>13</epage><pages>14033-13</pages><artnum>14033</artnum><issn>2045-2322</issn><eissn>2045-2322</eissn><abstract>Spiders are mega diverse arthropods and play an important role in the ecosystem. Identification of this group is challenging due to their cryptic behavior, sexual dimorphism, and unavailability of taxonomic keys for juveniles. To overcome these obstacles, DNA barcoding plays a pivotal role in spider identification throughout the globe. This study is the first large scale attempt on DNA barcoding of spiders from India with 101 morphospecies of 72 genera under 21 families, including five endemic species and holotypes of three species. A total of 489 barcodes was generated and analyzed, among them 85 novel barcodes of 22 morphospecies were contributed to the global database. The estimated delimitation threshold of the Indian spiders was 2.6% to 3.7% K2P corrected pairwise distance. The multiple species delimitation methods (BIN, ABGD, GMYC and PTP) revealed a total of 107 molecular operational taxonomic units (MOTUs) for 101 morphospecies. We detected more than one MOTU in 11 morphospecies with discrepancies in genetic distances and tree topologies. Cryptic diversity was detected in
Pardosa pusiola
,
Cyclosa spirifera
, and
Heteropoda venatoria
. The intraspecies distances which were as large as our proposed delimitation threshold were observed in
Pardosa sumatrana
,
Thiania bhamoensis
, and
Cheiracanthium triviale
. Further, shallow genetic distances were detected in
Cyrtophora cicatrosa
,
Hersilia savignyi
,
Argiope versicolor
,
Phintella vittata
, and
Oxyopes birmanicus
. Two morphologically distinguished species (
Plexippus paykulli
and
Plexippus petersi
) showed intra-individual variation within their DNA barcode data. Additionally, we reinstate the original combination for
Linyphia sikkimensis
based on both morphology and DNA barcoding. These data show that DNA barcoding is a valuable tool for specimen identification and species discovery of Indian spiders.</abstract><cop>London</cop><pub>Nature Publishing Group UK</pub><pmid>31575965</pmid><doi>10.1038/s41598-019-50510-8</doi><tpages>13</tpages><orcidid>https://orcid.org/0000-0002-0215-0120</orcidid><orcidid>https://orcid.org/0000-0003-1064-9826</orcidid><orcidid>https://orcid.org/0000-0002-5488-4433</orcidid><orcidid>https://orcid.org/0000-0001-9076-5442</orcidid><oa>free_for_read</oa></addata></record> |
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source | MEDLINE; DOAJ Directory of Open Access Journals; Springer Nature OA Free Journals; Nature Free; EZB-FREE-00999 freely available EZB journals; PubMed Central; Alma/SFX Local Collection; Free Full-Text Journals in Chemistry |
subjects | 14 45/22 45/23 45/29 631/181/2480 631/601/1466 Animals Araneae Classification Cryptic species Deoxyribonucleic acid DNA DNA - genetics DNA Barcoding, Taxonomic - methods Endemic species Female Genera Genetic distance Haplotypes Holotypes Humanities and Social Sciences Identification India Male multidisciplinary Phylogeny Polymerase Chain Reaction Science Science (multidisciplinary) Sexual behavior Sexual dimorphism Spiders Spiders - anatomy & histology Spiders - classification Spiders - genetics Taxonomy |
title | Identification of Indian Spiders through DNA barcoding: Cryptic species and species complex |
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