Insight into phylogenetic relationships among nematodes based on a phylumwide molecular framework of ~2500 full-length small subunit ribosomal DNA sequences

J. Helder, S.J.J. van den Elsen, P.J.W. Mooijman, H.H.B. van Megen, M.T.W. Vervoort, C.W. Quist, Ch.J.J. Mulder, W. Bert, A. Karegar, G. Karssen, R. Landeweert, J. Bakker

Research output: Chapter in Book/Report/Conference proceedingAbstractAcademic

Abstract

For decades nematodes systematics has been unstable. This can in part be attributed the limited number of informative morphological characters. Another major factor underlying the volatility of nematode systematics is the extensiveness of convergent evolution; it is hard to find any characteristic that has not evolved at least twice during evolution. These issues can in part be solved when a switch is made towards molecular data; this gives access to sheer inexhaustible number of characters. Most likely, nematodes arose during the Cambrian explosion about 530 MYA. Keeping the ancient nature of the nematodes as a group in mind, a relatively conserved gene should be selected for phylogenetic reconstruction. Two of the ribosomal DNA genes, the small and large subunit (SSU and LSU) rDNA, could be considered for phylum-wide analysis. However, the LSU rDNA (D1-D3) was shown to be too diverse for this purpose; it was almost impossible to align partial LSU rDNA sequences from Tylenchida (Clade 12) and Dorylaimida (Clade 2) (Helder, unpublished results). So far, the SSU rDNA gene is the only target gene that can be amplified easily with standard universal and nematode specific primers, and properly aligned. Over the last few years, we’ve collected, identified and sequenced a large number of mainly terrestrial and freshwater nematode species. This data set was supplemented with all publicly available animal parasitic and marine nematode sequences, and the results and implications of an overall phylogenetic analysis will be presented. Special attention will be paid to Clade 1, the most basal nematode clade harboring mainly representatives of the orders Enoplida and Triplonchida, and the most distal Clade 12, a clade that includes the most of the economically relevant plant-parasitic nematode species
Original languageEnglish
Title of host publicationThe 31th International Symposium of the European Society of Nematologists, Adana, Turkey, 23-27 September 2012
Place of PublicationAdana, Turkey
Pages77-77
Publication statusPublished - 2012
EventThe 31th International Symposium of the European Society of Nematologists - Adana
Duration: 23 Sep 201227 Sep 2012

Conference

ConferenceThe 31th International Symposium of the European Society of Nematologists
CityAdana
Period23/09/1227/09/12

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ribosomal DNA
Nematoda
nucleotide sequences
phylogeny
genes
taxonomy
convergent evolution
explosions
plant parasitic nematodes
animals

Cite this

Helder, J., van den Elsen, S. J. J., Mooijman, P. J. W., van Megen, H. H. B., Vervoort, M. T. W., Quist, C. W., ... Bakker, J. (2012). Insight into phylogenetic relationships among nematodes based on a phylumwide molecular framework of ~2500 full-length small subunit ribosomal DNA sequences. In The 31th International Symposium of the European Society of Nematologists, Adana, Turkey, 23-27 September 2012 (pp. 77-77). Adana, Turkey.
Helder, J. ; van den Elsen, S.J.J. ; Mooijman, P.J.W. ; van Megen, H.H.B. ; Vervoort, M.T.W. ; Quist, C.W. ; Mulder, Ch.J.J. ; Bert, W. ; Karegar, A. ; Karssen, G. ; Landeweert, R. ; Bakker, J. / Insight into phylogenetic relationships among nematodes based on a phylumwide molecular framework of ~2500 full-length small subunit ribosomal DNA sequences. The 31th International Symposium of the European Society of Nematologists, Adana, Turkey, 23-27 September 2012. Adana, Turkey, 2012. pp. 77-77
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abstract = "For decades nematodes systematics has been unstable. This can in part be attributed the limited number of informative morphological characters. Another major factor underlying the volatility of nematode systematics is the extensiveness of convergent evolution; it is hard to find any characteristic that has not evolved at least twice during evolution. These issues can in part be solved when a switch is made towards molecular data; this gives access to sheer inexhaustible number of characters. Most likely, nematodes arose during the Cambrian explosion about 530 MYA. Keeping the ancient nature of the nematodes as a group in mind, a relatively conserved gene should be selected for phylogenetic reconstruction. Two of the ribosomal DNA genes, the small and large subunit (SSU and LSU) rDNA, could be considered for phylum-wide analysis. However, the LSU rDNA (D1-D3) was shown to be too diverse for this purpose; it was almost impossible to align partial LSU rDNA sequences from Tylenchida (Clade 12) and Dorylaimida (Clade 2) (Helder, unpublished results). So far, the SSU rDNA gene is the only target gene that can be amplified easily with standard universal and nematode specific primers, and properly aligned. Over the last few years, we’ve collected, identified and sequenced a large number of mainly terrestrial and freshwater nematode species. This data set was supplemented with all publicly available animal parasitic and marine nematode sequences, and the results and implications of an overall phylogenetic analysis will be presented. Special attention will be paid to Clade 1, the most basal nematode clade harboring mainly representatives of the orders Enoplida and Triplonchida, and the most distal Clade 12, a clade that includes the most of the economically relevant plant-parasitic nematode species",
author = "J. Helder and {van den Elsen}, S.J.J. and P.J.W. Mooijman and {van Megen}, H.H.B. and M.T.W. Vervoort and C.W. Quist and Ch.J.J. Mulder and W. Bert and A. Karegar and G. Karssen and R. Landeweert and J. Bakker",
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Helder, J, van den Elsen, SJJ, Mooijman, PJW, van Megen, HHB, Vervoort, MTW, Quist, CW, Mulder, CJJ, Bert, W, Karegar, A, Karssen, G, Landeweert, R & Bakker, J 2012, Insight into phylogenetic relationships among nematodes based on a phylumwide molecular framework of ~2500 full-length small subunit ribosomal DNA sequences. in The 31th International Symposium of the European Society of Nematologists, Adana, Turkey, 23-27 September 2012. Adana, Turkey, pp. 77-77, The 31th International Symposium of the European Society of Nematologists, Adana, 23/09/12.

Insight into phylogenetic relationships among nematodes based on a phylumwide molecular framework of ~2500 full-length small subunit ribosomal DNA sequences. / Helder, J.; van den Elsen, S.J.J.; Mooijman, P.J.W.; van Megen, H.H.B.; Vervoort, M.T.W.; Quist, C.W.; Mulder, Ch.J.J.; Bert, W.; Karegar, A.; Karssen, G.; Landeweert, R.; Bakker, J.

The 31th International Symposium of the European Society of Nematologists, Adana, Turkey, 23-27 September 2012. Adana, Turkey, 2012. p. 77-77.

Research output: Chapter in Book/Report/Conference proceedingAbstractAcademic

TY - CHAP

T1 - Insight into phylogenetic relationships among nematodes based on a phylumwide molecular framework of ~2500 full-length small subunit ribosomal DNA sequences

AU - Helder, J.

AU - van den Elsen, S.J.J.

AU - Mooijman, P.J.W.

AU - van Megen, H.H.B.

AU - Vervoort, M.T.W.

AU - Quist, C.W.

AU - Mulder, Ch.J.J.

AU - Bert, W.

AU - Karegar, A.

AU - Karssen, G.

AU - Landeweert, R.

AU - Bakker, J.

PY - 2012

Y1 - 2012

N2 - For decades nematodes systematics has been unstable. This can in part be attributed the limited number of informative morphological characters. Another major factor underlying the volatility of nematode systematics is the extensiveness of convergent evolution; it is hard to find any characteristic that has not evolved at least twice during evolution. These issues can in part be solved when a switch is made towards molecular data; this gives access to sheer inexhaustible number of characters. Most likely, nematodes arose during the Cambrian explosion about 530 MYA. Keeping the ancient nature of the nematodes as a group in mind, a relatively conserved gene should be selected for phylogenetic reconstruction. Two of the ribosomal DNA genes, the small and large subunit (SSU and LSU) rDNA, could be considered for phylum-wide analysis. However, the LSU rDNA (D1-D3) was shown to be too diverse for this purpose; it was almost impossible to align partial LSU rDNA sequences from Tylenchida (Clade 12) and Dorylaimida (Clade 2) (Helder, unpublished results). So far, the SSU rDNA gene is the only target gene that can be amplified easily with standard universal and nematode specific primers, and properly aligned. Over the last few years, we’ve collected, identified and sequenced a large number of mainly terrestrial and freshwater nematode species. This data set was supplemented with all publicly available animal parasitic and marine nematode sequences, and the results and implications of an overall phylogenetic analysis will be presented. Special attention will be paid to Clade 1, the most basal nematode clade harboring mainly representatives of the orders Enoplida and Triplonchida, and the most distal Clade 12, a clade that includes the most of the economically relevant plant-parasitic nematode species

AB - For decades nematodes systematics has been unstable. This can in part be attributed the limited number of informative morphological characters. Another major factor underlying the volatility of nematode systematics is the extensiveness of convergent evolution; it is hard to find any characteristic that has not evolved at least twice during evolution. These issues can in part be solved when a switch is made towards molecular data; this gives access to sheer inexhaustible number of characters. Most likely, nematodes arose during the Cambrian explosion about 530 MYA. Keeping the ancient nature of the nematodes as a group in mind, a relatively conserved gene should be selected for phylogenetic reconstruction. Two of the ribosomal DNA genes, the small and large subunit (SSU and LSU) rDNA, could be considered for phylum-wide analysis. However, the LSU rDNA (D1-D3) was shown to be too diverse for this purpose; it was almost impossible to align partial LSU rDNA sequences from Tylenchida (Clade 12) and Dorylaimida (Clade 2) (Helder, unpublished results). So far, the SSU rDNA gene is the only target gene that can be amplified easily with standard universal and nematode specific primers, and properly aligned. Over the last few years, we’ve collected, identified and sequenced a large number of mainly terrestrial and freshwater nematode species. This data set was supplemented with all publicly available animal parasitic and marine nematode sequences, and the results and implications of an overall phylogenetic analysis will be presented. Special attention will be paid to Clade 1, the most basal nematode clade harboring mainly representatives of the orders Enoplida and Triplonchida, and the most distal Clade 12, a clade that includes the most of the economically relevant plant-parasitic nematode species

M3 - Abstract

SP - 77

EP - 77

BT - The 31th International Symposium of the European Society of Nematologists, Adana, Turkey, 23-27 September 2012

CY - Adana, Turkey

ER -

Helder J, van den Elsen SJJ, Mooijman PJW, van Megen HHB, Vervoort MTW, Quist CW et al. Insight into phylogenetic relationships among nematodes based on a phylumwide molecular framework of ~2500 full-length small subunit ribosomal DNA sequences. In The 31th International Symposium of the European Society of Nematologists, Adana, Turkey, 23-27 September 2012. Adana, Turkey. 2012. p. 77-77