Focus on some problematic clades for barcode assignment.

Pei, Nancai
Erickson, David L.
Chen, Bufeng
Ge, Xuejun
Mi, Xiangcheng
Swenson, Nathan G.
Zhang, Jin-Long
Jones, Frank A.
Huang, Chun-Lin
Ye, Wanhui
Hao, Zhanqing
Hsieh, Chang-Fu
Lum, Shawn
Bourg, Norman A.
Parker, John D.
Zimmerman, Jess K.
McShea, William J.
Lopez, Ida C.
Sun, I-Fang
Davies, Stuart J.
Ma, Keping
Kress, W. John

January 2015

To determine how well DNA barcodes from the chloroplast region perform in forest dynamics plots (FDP...

Phylogenetic tree based on amino acid sequence comparisons.

Yanqun Liu (548187)
Miaomiao Chen (763128)
Junfang Su (763129)
Hongfang Ma (763130)
Xixi Zheng (763131)
Qun Li (222962)
Shenglin Shi (763132)
Li Qin (205731)

June 2015

The numbers near the branch represent bootstrap percentages. The topology was tested using bootst...

Impact of genus size on DNA barcode performance.

Reza Zahiri (542748)
J. Donald Lafontaine (542749)
B. Christian Schmidt (542750)
Jeremy R. deWaard (226435)
Evgeny V. Zakharov (432712)
Paul D. N. Hebert (127093)

March 2014

The relationship between the number of species in a genus (plotted on a log2 scale) and the incid...

Focus on some problematic clades for barcode assignment (following on from Figure 7).

Armelle Coeur d’acier (572379)
Astrid Cruaud (159999)
Emmanuelle Artige (572380)
Gwenaëlle Genson (181496)
Anne-Laure Clamens (572381)
Eric Pierre (572382)
Sylvie Hudaverdian (572383)
Jean-Christophe Simon (65402)
Emmanuelle Jousselin (572384)
Jean-Yves Rasplus (159990)

June 2014

See <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0097620#pone.0097620.s0...

NJ tree of pairwise K2P substitution rates for the barcode option 2 (rpoC1, matK and trnH-psbA) implicating the reduced dataset.

Mariangela Arca (176217)
Damien Daniel Hinsinger (176222)
Corinne Cruaud (85480)
Annie Tillier (176226)
Jean Bousquet (20909)
Nathalie Frascaria-Lacoste (176228)

March 2012

Bootstrap values of 50% and above are shown on the branches. Species that were potentially well-d...

Phylogenetic relationships existing between the 90 inbred lines (NJ tree).

Dana Șuteu (503713)
Ioan Băcilă (503714)
Voichița Haș (503715)
Ioan Haș (503716)
Mihai Miclăuș (5657359)

December 2013

The phylogenetic tree reflects population structure inferred by Structure with good fidelity. Col...

Neighbour-Joining (NJ) tree of CO1 barcodes for all Lutjanus species collected at Malaysian landing sites.

Adibah Abu Bakar (5721083)
Eleanor A. S. Adamson (5721086)
Lia Halim Juliana (5721089)
Siti Azizah Nor Mohd (5721092)
Chen Wei-Jen (5721095)
Alias Man (5721098)
Darlina Naim Md (5721101)

September 2018

Tips representing sequences for all individuals sampled have been collapsed into species clades to s...

Strict consensus unrooted NJ tree with 1000 bootstrap replicates based on sequence combination of ITS and trnH-psbA.

Abhinandan Mani Tripathi (382535)
Antariksh Tyagi (238816)
Anoop Kumar (44)
Akanksha Singh (382536)
Shivani Singh (382537)
Lal Babu Chaudhary (238825)
Sribash Roy (238814)

February 2013

Numbers at the branch nodes are bootstrap values. Codes preceding the species name indicate DNA n...

Incongruences and inconsistencies in barcode data.

Rupert A. Collins (377358)
Karen F. Armstrong (187115)
Rudolf Meier (92763)
Youguang Yi (187121)
Samuel D. J. Brown (187128)
Robert H. Cruickshank (187135)
Suzanne Keeling (187139)
Colin Johnston (187143)

January 2012

This reduced-taxon NJ phylogram highlights cases of haplotype sharing and paraphyly/polyphyly bet...

Barcoding success of African rain forest trees at a local scale for species identification (a) and genus identification (b).

Ingrid Parmentier (397308)
Jérôme Duminil (397309)
Maria Kuzmina (397310)
Morgane Philippe (397311)
Duncan W. Thomas (397312)
David Kenfack (397313)
George B. Chuyong (397314)
Corinne Cruaud (85480)
Olivier J. Hardy (397315)

April 2013

Shared superscript letters indicate which pDNA regions or combinations of pDNA regions do not dif...

A maximum likehood phylogenetic tree estimated from four different barcode loci.

Mohammadjavad Jafari (5759162)
Waheed Akram (606083)
Yanju Pang (5759165)
Aqeel Ahmad (2267113)
Shakeel Ahmed (3176139)
Nasim Ahmad Yasin (5759168)
Tehmina Anjum (5759171)
Basharat Ali (2215288)
Xiangdong Hu (779017)
Xiaohua Li (311008)
Shuang Dong (3816961)
Qian Cai (112039)
Matteo Ciprian (5759174)
Monika Bielec (5759177)
Sheng Hu (291314)
Fatemeh Sefidkon (5240339)
Xuebo Hu (334720)

September 2018

Phylogenetic trees were inferred from either dataset of all barcode loci (A) of by using ITS (B) and...

Barcoding of bat specimens.

Susan Nadin-Davis (3148356)
Noor Alnabelseya (4036682)
M. Kimberly Knowles (4036685)

May 2017

A NJ tree was generated using 216 COI sequences of 516 bp length. The sample name for 149 sequenc...

Phylogenetic tree showing the relationship of the 21 predominant 16S rRNA gene-based DGGE bands (A) and the 30 predominant 18S rRNA gene-based DGGE bands (B).

Chuncan Si (504814)
Xueyan Liu (361227)
Congyan Wang (504815)
Lei Wang (6656)
Zhicong Dai (504816)
Shanshan Qi (504817)
Daolin Du (504818)

December 2013

Numbers at the node are bootstrap values based on 1000 re-samplings. The scale bar represents per...

NJ tree of genetic distance (JC) for 91 Bromeliaceae specimens, based on rbcL, matK and trnH-psbA combined analysis.

Vitor Hugo Maia (189104)
Camila Souza da Mata (189105)
Luciana Ozório Franco (189106)
Mônica Aires Cardoso (189109)
Sérgio Ricardo Sodré Cardoso (189113)
Adriana Silva Hemerly (189118)
Paulo Cavalcanti Gomes Ferreira (189122)

January 2012

Genera and species recovered as monophyletic are highlighted (thicker branches and names in blue,...

NJ tree of pairwise K2P substitution rates for the trnH–psbA dataset implicating the expanded dataset.

Mariangela Arca (176217)
Damien Daniel Hinsinger (176222)
Corinne Cruaud (85480)
Annie Tillier (176226)
Jean Bousquet (20909)
Nathalie Frascaria-Lacoste (176228)

March 2012

Bootstrap values of 50% and above are shown on the branches. Species that were potentially well-d...

Pei, Nancai
Erickson, David L.
Chen, Bufeng
Ge, Xuejun
Mi, Xiangcheng
Swenson, Nathan G.
Zhang, Jin-Long
Jones, Frank A.
Huang, Chun-Lin
Ye, Wanhui
Hao, Zhanqing
Hsieh, Chang-Fu
Lum, Shawn
Bourg, Norman A.
Parker, John D.
Zimmerman, Jess K.
McShea, William J.
Lopez, Ida C.
Sun, I-Fang
Davies, Stuart J.
Ma, Keping
Kress, W. John

January 2015

To determine how well DNA barcodes from the chloroplast region perform in forest dynamics plots (FDP...

Phylogenetic tree based on amino acid sequence comparisons.

Yanqun Liu (548187)
Miaomiao Chen (763128)
Junfang Su (763129)
Hongfang Ma (763130)
Xixi Zheng (763131)
Qun Li (222962)
Shenglin Shi (763132)
Li Qin (205731)

June 2015

The numbers near the branch represent bootstrap percentages. The topology was tested using bootst...

Impact of genus size on DNA barcode performance.

Reza Zahiri (542748)
J. Donald Lafontaine (542749)
B. Christian Schmidt (542750)
Jeremy R. deWaard (226435)
Evgeny V. Zakharov (432712)
Paul D. N. Hebert (127093)

March 2014

The relationship between the number of species in a genus (plotted on a log2 scale) and the incid...

Focus on some problematic clades for barcode assignment (following on from Figure 7).

Armelle Coeur d’acier (572379)
Astrid Cruaud (159999)
Emmanuelle Artige (572380)
Gwenaëlle Genson (181496)
Anne-Laure Clamens (572381)
Eric Pierre (572382)
Sylvie Hudaverdian (572383)
Jean-Christophe Simon (65402)
Emmanuelle Jousselin (572384)
Jean-Yves Rasplus (159990)

June 2014

See <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0097620#pone.0097620.s0...

NJ tree of pairwise K2P substitution rates for the barcode option 2 (rpoC1, matK and trnH-psbA) implicating the reduced dataset.

Mariangela Arca (176217)
Damien Daniel Hinsinger (176222)
Corinne Cruaud (85480)
Annie Tillier (176226)
Jean Bousquet (20909)
Nathalie Frascaria-Lacoste (176228)

March 2012

Bootstrap values of 50% and above are shown on the branches. Species that were potentially well-d...

Phylogenetic relationships existing between the 90 inbred lines (NJ tree).

Dana Șuteu (503713)
Ioan Băcilă (503714)
Voichița Haș (503715)
Ioan Haș (503716)
Mihai Miclăuș (5657359)

December 2013

The phylogenetic tree reflects population structure inferred by Structure with good fidelity. Col...

Neighbour-Joining (NJ) tree of CO1 barcodes for all Lutjanus species collected at Malaysian landing sites.

Adibah Abu Bakar (5721083)
Eleanor A. S. Adamson (5721086)
Lia Halim Juliana (5721089)
Siti Azizah Nor Mohd (5721092)
Chen Wei-Jen (5721095)
Alias Man (5721098)
Darlina Naim Md (5721101)

September 2018

Tips representing sequences for all individuals sampled have been collapsed into species clades to s...

Strict consensus unrooted NJ tree with 1000 bootstrap replicates based on sequence combination of ITS and trnH-psbA.

Abhinandan Mani Tripathi (382535)
Antariksh Tyagi (238816)
Anoop Kumar (44)
Akanksha Singh (382536)
Shivani Singh (382537)
Lal Babu Chaudhary (238825)
Sribash Roy (238814)

February 2013

Numbers at the branch nodes are bootstrap values. Codes preceding the species name indicate DNA n...

Incongruences and inconsistencies in barcode data.

Rupert A. Collins (377358)
Karen F. Armstrong (187115)
Rudolf Meier (92763)
Youguang Yi (187121)
Samuel D. J. Brown (187128)
Robert H. Cruickshank (187135)
Suzanne Keeling (187139)
Colin Johnston (187143)

January 2012

This reduced-taxon NJ phylogram highlights cases of haplotype sharing and paraphyly/polyphyly bet...

Barcoding success of African rain forest trees at a local scale for species identification (a) and genus identification (b).

Ingrid Parmentier (397308)
Jérôme Duminil (397309)
Maria Kuzmina (397310)
Morgane Philippe (397311)
Duncan W. Thomas (397312)
David Kenfack (397313)
George B. Chuyong (397314)
Corinne Cruaud (85480)
Olivier J. Hardy (397315)

April 2013

Shared superscript letters indicate which pDNA regions or combinations of pDNA regions do not dif...

A maximum likehood phylogenetic tree estimated from four different barcode loci.

Mohammadjavad Jafari (5759162)
Waheed Akram (606083)
Yanju Pang (5759165)
Aqeel Ahmad (2267113)
Shakeel Ahmed (3176139)
Nasim Ahmad Yasin (5759168)
Tehmina Anjum (5759171)
Basharat Ali (2215288)
Xiangdong Hu (779017)
Xiaohua Li (311008)
Shuang Dong (3816961)
Qian Cai (112039)
Matteo Ciprian (5759174)
Monika Bielec (5759177)
Sheng Hu (291314)
Fatemeh Sefidkon (5240339)
Xuebo Hu (334720)

September 2018

Phylogenetic trees were inferred from either dataset of all barcode loci (A) of by using ITS (B) and...

Barcoding of bat specimens.

Susan Nadin-Davis (3148356)
Noor Alnabelseya (4036682)
M. Kimberly Knowles (4036685)

May 2017

A NJ tree was generated using 216 COI sequences of 516 bp length. The sample name for 149 sequenc...

Phylogenetic tree showing the relationship of the 21 predominant 16S rRNA gene-based DGGE bands (A) and the 30 predominant 18S rRNA gene-based DGGE bands (B).

Chuncan Si (504814)
Xueyan Liu (361227)
Congyan Wang (504815)
Lei Wang (6656)
Zhicong Dai (504816)
Shanshan Qi (504817)
Daolin Du (504818)

December 2013

Numbers at the node are bootstrap values based on 1000 re-samplings. The scale bar represents per...

NJ tree of genetic distance (JC) for 91 Bromeliaceae specimens, based on rbcL, matK and trnH-psbA combined analysis.

Vitor Hugo Maia (189104)
Camila Souza da Mata (189105)
Luciana Ozório Franco (189106)
Mônica Aires Cardoso (189109)
Sérgio Ricardo Sodré Cardoso (189113)
Adriana Silva Hemerly (189118)
Paulo Cavalcanti Gomes Ferreira (189122)

January 2012

Genera and species recovered as monophyletic are highlighted (thicker branches and names in blue,...

NJ tree of pairwise K2P substitution rates for the trnH–psbA dataset implicating the expanded dataset.

Mariangela Arca (176217)
Damien Daniel Hinsinger (176222)
Corinne Cruaud (85480)
Annie Tillier (176226)
Jean Bousquet (20909)
Nathalie Frascaria-Lacoste (176228)

March 2012

Bootstrap values of 50% and above are shown on the branches. Species that were potentially well-d...

Pei, Nancai
Erickson, David L.
Chen, Bufeng
Ge, Xuejun
Mi, Xiangcheng
Swenson, Nathan G.
Zhang, Jin-Long
Jones, Frank A.
Huang, Chun-Lin
Ye, Wanhui
Hao, Zhanqing
Hsieh, Chang-Fu
Lum, Shawn
Bourg, Norman A.
Parker, John D.
Zimmerman, Jess K.
McShea, William J.
Lopez, Ida C.
Sun, I-Fang
Davies, Stuart J.
Ma, Keping
Kress, W. John

January 2015

To determine how well DNA barcodes from the chloroplast region perform in forest dynamics plots (FDP...

Phylogenetic tree based on amino acid sequence comparisons.

Yanqun Liu (548187)
Miaomiao Chen (763128)
Junfang Su (763129)
Hongfang Ma (763130)
Xixi Zheng (763131)
Qun Li (222962)
Shenglin Shi (763132)
Li Qin (205731)

June 2015

The numbers near the branch represent bootstrap percentages. The topology was tested using bootst...

Impact of genus size on DNA barcode performance.

Reza Zahiri (542748)
J. Donald Lafontaine (542749)
B. Christian Schmidt (542750)
Jeremy R. deWaard (226435)
Evgeny V. Zakharov (432712)
Paul D. N. Hebert (127093)

March 2014

The relationship between the number of species in a genus (plotted on a log2 scale) and the incid...

Focus on some problematic clades for barcode assignment.

Abstract

Extracted data

Focus on some problematic clades for barcode assignment.

Abstract

Extracted data

Related items

Related items