Cookies Policy
X

This site uses cookies. By continuing to browse the site you are agreeing to our use of cookies.

I accept this policy

Find out more here

Molecular and morphological characterisation of Xiphinema americanum-group species (Nematoda: Dorylaimida) from California, USA, and other regions, and co-evolution of bacteria from the genus Candidatus Xiphinematobacter with nematodes

No metrics data to plot.
The attempt to load metrics for this article has failed.
The attempt to plot a graph for these metrics has failed.
The full text of this article is not currently available.

Brill’s MyBook program is exclusively available on BrillOnline Books and Journals. Students and scholars affiliated with an institution that has purchased a Brill E-Book on the BrillOnline platform automatically have access to the MyBook option for the title(s) acquired by the Library. Brill MyBook is a print-on-demand paperback copy which is sold at a favorably uniform low price.

Access this article

+ Tax (if applicable)
Add to Favorites
You must be logged in to use this functionality

For more content, see Nematologica.

The Xiphinema americanum-group is a large species complex containing more than 50 nematode species. They are economically important because they are vectors of nepoviruses. The species differentiation of X. americanum-group is problematic because the species share similar morphological characters. In the present study we collected nematode samples from different locations in the USA, Italy and Russia. Six valid species, X. americanum s. str., X. brevicolle, X. californicum, X. pachtaicum, X. rivesi and X. simile, and four unidentified putative Xiphinema species were characterised by morphology and sequencing of D2-D3 of 28S rRNA, ITS1 rRNA and mitochondrial COI genes. New nematode sequences generated totalled 147. Phylogenetic relationships of the X. americanum-group species reconstructed by Bayesian inference for D2-D3 of 28S rRNA gene sequences did not provide clear species delimitation of the samples studied, although the mtDNA presented interspecific variations useful for demarcation among species. Xiphinema americanum s. str., X. californicum, X. pachtaicum, X. rivesi, and two unidentified Xiphinema species were found in 72 soil samples from California. We also reconstructed the phylogenetic relationships using partial 16S rRNA gene sequences within endosymbiotic bacteria of the genus Candidatus Xiphinematobacter and provided solid evidence for distinguishing 17 species of this genus based on the analysis of new and previously published sequences. Fifty-five new bacterial sequences were obtained in the present study and comparison of the bacterial 16S rRNA and nematode COI phylogenies revealed a high level of co-speciation events between host and symbiont.

Affiliations: 1: 1Via Giacomo Puccini 14, 90017 Santa Flavia, Italy ; 2: 2Nematology Research Unit, Department of Biology, Ghent University, Ledeganckstraat 35, 9000 Ghent, Belgium ; 3: 3Plant Pest Diagnostic Center, California Department of Food and Agriculture, 3294 Meadowview Road, Sacramento, CA 95832-1448, USA ; 4: 4Center of Parasitology of A.N. Severtsov Institute of Ecology and Evolution of the Russian Academy of Sciences, Leninskii prospect 33, Moscow 117071, Russia ; 5: 5National Germplasm Resources Laboratory, USDA, ARS, 10300 Baltimore Avenue, Beltsville, MD 20705, USA

*Corresponding author, e-mail: sergei.a.subbotin@gmail.com
Loading

Full text loading...

/content/journals/10.1163/15685411-00003012
Loading

Data & Media loading...

1. Archidona-Yuste A., Navas-Cortes J.A., Cantalapiedra-Navarrete C., Palomares-Rius J.E., Castillo P. (2016). "Cryptic diversity and species delimitation in the Xiphinema americanum-group complex (Nematoda: Longidoridae) as inferred from morphometrics and molecular markers". Zoological Journal of the Linnean Society Vol 176, 231-265. http://dx.doi.org/10.1111/zoj.12316
2. Balbuena J.A., Mıguez-Lozano R., Blasco-Costa I. (2013). "PACo: a novel procrustes application to cophylogenetic analysis". PLoS ONE Vol 8, e61048. http://dx.doi.org/10.1371/journal.pone.0061048
3. Brosius J., Palmer M.L., Kennedy P.J., Noller H.F. (1978). "Complete nucleotide sequence of a 16S ribosomal RNA gene from Escherichia coli". Proceedings of the National Academy of Sciences of the United States of America Vol 75, 4801-4805. http://dx.doi.org/10.1073/pnas.75.10.4801
4. Brown A.M.V., Howe D.K., Wasala S.K., Peetz A.B., Zasada I.A., Denver D.R. (2015). "Comparative genomics of a plant-parasitic nematode endosymbiont suggest a role in nutritional symbiosis". Genome Biology and Evolution Vol 7, 2727-2746. http://dx.doi.org/10.1093/gbe/evv176
5. Brown D.J.F., Boag B. (1988). "An examination of methods used to extract virus-vector nematodes (Nematoda: Longidoridae and Trichodoridae) from soil samples". Nematologia Mediterranea Vol 16, 93-99.
6. Brown D.J.F., Halbrendt J.M., Jones A.T., Vrain T.C., Robbins R.T. (1994). "Transmission of three North American nepoviruses by populations of four distinct species of the Xiphinema americanum group". Phytopathology Vol 84, 646-649. http://dx.doi.org/10.1094/Phyto-84-646
7. Cherry T., Szalanski A.L., Todd T.C., Powers T.O. (1997). "The internal transcribed spacer region of Belonolaimus (Nemata: Belonolaimidae)". Journal of Nematology Vol 29, 23-29.
8. Cho M.R., Robbins R.T. (1991). "Morphological variation among 23 Xiphinema americanum populations". Journal of Nematology Vol 23, 134-144.
9. Conow C., Fielder D., Ovadia Y., Libeskind-Hadas R. (2010). "Jane: a new tool for the cophylogeny reconstruction problem". Algorithms for Molecular Biology Vol 5, 16. http://dx.doi.org/10.1186/1748-7188-5-16
10. Coolen W. (1979). "Methods for the extraction of Meloidogyne spp. and other nematodes from roots and soil". In: Lamberti F., Taylor C.E. (Eds). Root-knot nematodes (Meloidogyne species): systematics, biology and control. London, UK, Academic Press, pp.  317-329.
11. Coomans A. (1996). "Phylogeny of the Longidoridae". Russian Journal of Nematology Vol 4, 51-59.
12. Coomans A., Claeys M. (1998). "Structure of the female reproductive system of Xiphinema americanum (Nematoda: Longidoridae)". Fundamental and Applied Nematology Vol 21, 569-580.
13. Coomans A., Vandekerckhove T.T., Claeys M. (2000). "Transovarial transmission of symbionts in Xiphinema brevicollum (Nematoda: Longidoridae)". Nematology Vol 2, 443-449. http://dx.doi.org/10.1163/156854100509303
14. De Grisse A.T. (1969). "Redescription ou modifications de quelques techniques utilisées dans l’étude des nématodes phytoparasitaires". Mededelingen Rijksfakulteit Landbouwwetenschappen Ghent Vol 34, 351-369.
15. Decraemer W., Robbins R.T. (2007). "The who, what and where of Longidoridae and Trichodoridae". Journal of Nematology Vol 39, 295.
16. Doucet M.E., Ferraz L.C.C.B., Magunacelaya J.C., Brown D.J.F. (1998). "The occurrence and distribution of Longidoridae (Nematoda) in Latin America". Russian Journal of Nematology Vol 6, 111-128.
17. EPPO (2015). EPPO Standards. EPPO A1 and A2 lists of pests recommended for regulation as quarantine pests. Available online at http://archives.eppo.int/EPPOStandards/PM1_GENERAL/pm1-02(24)_A1A2_2015.pdf.
18. Gozel U., Lamberti F., Duncan L., Agostinelli A., Rosso L., Nguyen K., Adams B.J. (2006). "Molecular and morphological consilience in the characterization and delimitation of five nematode species from Florida belonging to the Xiphinema americanum-group". Nematology Vol 8, 521-532. http://dx.doi.org/10.1163/156854106778613958
19. Griesbach J.A., Maggenti A.R. (1990). "The morphometrics of Xiphinema americanum sensu lato in California". Revue de Nématologie Vol 13, 93-103.
20. Gutiérrez-Gutiérrez C., Castillo P., Cantalapiedra-Navarrete C., Landa B.B., Derycke S., Palomares-Rius J.E. (2011). "Genetic structure of Xiphinema pachtaicum and X. index populations based on mitochondrial DNA variation". Phytopathology Vol 101, 1168-1175. http://dx.doi.org/10.1094/PHYTO-07-10-0194
21. Gutiérrez-Gutiérrez C., Cantalapiedra-Navarrete C., Decraemer W., Vovlas N., Prior T., Palomares-Rius J.E., Castillo P. (2012). "Phylogeny, diversity, and species delimitation in some species of the Xiphinema americanum-group complex (Nematoda: Longidoridae), as inferred from nuclear and mitochondrial DNA sequences and morphology". European Journal of Plant Pathology Vol 134, 561-597. http://dx.doi.org/10.1007/s10658-012-0039-9
22. He Y., Subbotin S.A., Rubtsova T.V., Lamberti F., Brown D.J.F., Moens M. (2005a). "A molecular phylogenetic approach to Longidoridae (Nematoda: Dorylaimida)". Nematology Vol 7, 111-124. http://dx.doi.org/10.1163/1568541054192108
23. He Y., Jones J., Armstrong M., Lamberti F., Moens M. (2005b). "The mitochondrial genome of Xiphinema americanum sensu stricto (Nematoda: Enoplea): considerable economization in the length and structural features of encoded genes". Journal of Molecular Evolution Vol 61, 819-833. http://dx.doi.org/10.1007/s00239-005-0102-7
24. Huelsenbeck J.P., Ronquist F. (2001). "MRBAYES: Bayesian inference of phylogenetic trees". Bioinformatics Vol 17, 754-755. http://dx.doi.org/10.1093/bioinformatics/17.8.754
25. Kim M., Oh H.S., Park S.C., Chun J. (2014). "Towards a taxonomic coherence between average nucleotide identity and 16S rRNA gene sequence similarity for species demarcation of prokaryotes". International Journal of Systematic and Evolutionary Microbiology Vol 64, 346-351. http://dx.doi.org/10.1099/ijs.0.059774-0
26. Kumari S., Subbotin S.A. (2012). "Characterization of Longidorus helveticus (Nematoda: Longidoridae) from the Czech Republic". European Journal of Plant Pathology Vol 133, 923-933. http://dx.doi.org/10.1007/s10658-012-9959-7
27. Kumari S., Decraemer W., De Luca F., Tiefenbrunner W. (2010). "Cytochrome c oxidase subunit 1 analysis of Xiphinema diversicaudatum, X. pachtaicum, X. simile and X. vuittenezi (Nematoda, Dorylaimida)". European Journal of Plant Pathology Vol 127, 493-499. http://dx.doi.org/10.1007/s10658-010-9614-0
28. Lamberti F., Bleve-Zacheo T. (1979). "Studies on Xiphinema americanum sensu lato with descriptions of fifteen new species (Nematoda, Longidoridae)". Nematologia Mediterranea Vol 7, 51-106.
29. Lamberti F., Ciancio A. (1993). "Diversity of Xiphinema americanum-group species and hierarchical cluster-analysis of morphometrics". Journal of Nematology Vol 25, 332-343.
30. Lamberti F., Golden A.M. (1984). "Redescription of Xiphinema americanum Cobb, 1913 with comments on its morphometric variations". Journal of Nematology Vol 16, 204-206.
31. Lamberti F., Siddiqi M.R. (1977). "Xiphinema pachtaicum (= X. mediterraneum)". In: CIH descriptions of plant-parasitic nematodes, Set 7, No. 94. Farnham Royal, UK, Commonwealth Agricultural Bureaux.
32. Lamberti F., Ciancio A., Agostinelli A., Coiro M.I. (1992). "Relationships berween Xiphinema brevicolle and X. diffusum with a redescription of X. brevicolle and description of three new species of Xiphinema (Nematoda: Dorylamida)". Nematologia Mediterranea Vol 19(1991), 311-326.
33. Lamberti F., Molinari S., Moens M., Brown D.J.F. (2000). "The Xiphinema americanum-group. I. Putative species, their geographical occurrence and distribution, and regional polytomous identification keys for the group". Russian Journal of Nematology Vol 8, 65-84.
34. Lamberti F., Molinari S., Moens M., Brown D.J.F. (2002). "The Xiphinema americanum-group. II. Morphometric relationships". Russian Journal of Nematology Vol 10, 99-112.
35. Lamberti F., Hockland S., Agostinelli A., Moens M., Brown D.J.F. (2004). "The Xiphinema americanum group. III. Keys to species identification". Nematologia Mediterranea Vol 32, 53-56.
36. Lazarova S.S., Malloch G., Fenton B., Oliveira C.M.G., Robbins R.T., Lamberti F., Brown D.J.F., Neilson R. (2003). Endosymbiont bacteria of Xiphinema americanum group nematodes. Proceedings of 16th Symposium of Nematological Society of South Africa, 1-4 July, 2003, Cape Town, South Africa, p. 54.
37. Lazarova S.S., Brown D.J.F., Malloch G., Oliveira C.M.G., Vandekerckhove T.T.M., Fenton B., Wright F., Lamberti F., Barsi L., Neilson R. (2004). Phylogenetic relationships of the endosymbiont bacteris of Xiphinema americanum-group nematodes. Proceedings of 27th ESN International Symposium, 14-18 June, Rome, Italy, pp. 70-71.
38. Lazarova S.S., Malloch G., Oliveira C.M.G., Hubschen J., Neilson R. (2006). "Ribosomal and mitochondrial DNA analyses of Xiphinema americanum-group populations". Journal of Nematology Vol 38, 404-410.
39. Lazarova S.S., Brown D.J.F., Oliveira M.G., Fenton B., MacKenzie K., Wright F., Malloch G., Neilson R. (2016). "Diversity of endosymbiont bacteria associated with a non-filarial nematode group". Nematology Vol 18, 615-623. http://dx.doi.org/10.1163/15685411-00002982
40. Luc M., Coomans A., Loof P.A.A., Baujard P. (1998). "The Xiphinema americanum-group (Nematoda: Longidoridae). 2. Observations on Xiphinema brevicollum Lordello & da Costa, 1961 and comments on the group". Fundamental and Applied Nematology Vol 21, 475-490.
41. Messing J. (1983). "New M13 vectors for cloning". Methods in Enzymology Vol 101, 20-78. http://dx.doi.org/10.1016/0076-6879(83)01005-8
42. Meza P., Aballay E., Hinrichsen P. (2011). "Molecular and morphological characterisation of species within the Xiphinema americanum-group (Dorylaimida: Longidoridae) from the central valley of Chile". Nematology Vol 13, 295-306. http://dx.doi.org/10.1163/138855410X518498
43. Navas A., Fe Andres M., Arias M. (1990). "Biogeography of Longidoridae in the Euromediterranean areas". Nematologia Mediterranea Vol 18, 103-112.
44. Nunn G.B. (1992). Nematode molecular evolution: an investigation of evolutionary patterns among nematodes based upon DNA sequences. Ph.D. Thesis, University of Nottingham, Nottingham.
45. Oliveira C.M.G., Hübschen J., Brown D.J.F., Ferraz L.C.C.B., Wright F., Neilson R. (2004). "Phylogenetic relationships among Xiphinema and Xiphidorus nematode species from Brazil inferred from 18S rDNA sequences". Journal of Nematology Vol 36, 153-159.
46. Posada D. (2008). "jModelTest: phylogenetic model averaging". Molecular Biology and Evolution Vol 25, 1253-1256. http://dx.doi.org/10.1093/molbev/msn083
47. Robbins R.T. (1993). "Distribution of Xiphinema americanum and related species in North America". Journal of Nematology Vol 25, 344-348.
48. Robbins R.T., Brown D.J.F. (1991). "Comments on the taxonomy, occurrence and distribution of Longidoridae (Nematoda) in North America". Nematologica Vol 37, 395-419. http://dx.doi.org/10.1163/187529291X00402
49. Roca F., Lamberti F., Agostinelli A. (1989). "I Longidoridae (Nematoda, Dorylaimida) delle regioni Italiane. IX. La Sicilia". Nematologia Mediterranea Vol 17, 151-165.
50. Sakai H., Takeda A., Mizukubo T. (2011). "First report of Xiphinema brevicolle Lordello et Costa, 1961 (Nematoda, Longidoridae) in Japan". ZooKeys Vol 135, 21-40. http://dx.doi.org/10.3897/zookeys.135.1716
51. Seinhorst J.W. (1959). "A rapid method for the transfer of nematodes from fixative to anhydrous glycerin". Nematologica Vol 4, 67-69. http://dx.doi.org/10.1163/187529259X00381
52. Seinhorst J.W. (1966). "Killing nematodes for taxonomic study with hot fa 4: 1". Nematologica Vol 12, 178-178. http://dx.doi.org/10.1163/187529266X00239
53. Siddiqi M.R. (1977). "Xiphinema mediterraneum Martelli et Lamberti, a junior synonym of X. pachtaicum (Tulaganov) Kirjanova". Nematologia Mediterranea Vol 5, 133-135.
54. Sites J.W. Jr, Marshall J.C. (2004). "Operational criteria for delimiting species". Annual Review of Ecology, Evolution and Systematics Vol 35, 199-227. http://dx.doi.org/10.1146/annurev.ecolsys.35.112202.130128
55. Subbotin S.A., Stanley J.D., Ploeg A.T., Tanha Maafi Z., Tzortzakakis E.A., Chitambar J.J., Palomares-Rius J.E., Castillo P., Inserra R.N. (2015). "Characterisation of populations of Longidorus orientalis Loof, 1982 (Nematoda: Dorylaimida) from date palm (Phoenix dactylifera L.) in the USA and other countries and incongruence of phylogenies inferred from ITS1 rRNA and coxI genes". Nematology Vol 17, 459-477. http://dx.doi.org/10.1163/15685411-00002881
56. Swofford D.L. (2002). PAUP∗. Phylogenetic analysis using parsimony (∗ and other methods), version 4. Sunderland, MA, USA, Sinauer Associates.
57. Tanha Maafi Z., Subbotin S.A., Moens M. (2003). "Molecular identification of cyst-forming nematodes (Heteroderidae) from Iran and a phylogeny based on the ITS sequences of rDNA". Nematology Vol 5, 99-111. http://dx.doi.org/10.1163/156854102765216731
58. Taylor C.E., Brown D.J.F. (1997). Nematode vectors of plant viruses. Wallingford, UK, CAB International.
59. Vandekerckhove T., Willems A., Gillis M., Coomans A. (2000). "Occurrence of novel verrucomicrobial species, endosymbiotic and associated with parthenogenesis in Xiphinema americanum-group species (Nematoda, Longidoridae)". International Journal of Systematic and Evolutionary Microbiology Vol 50, 2197-2205. http://dx.doi.org/10.1099/00207713-50-6-2197
60. Vandekerckhove T.T., Coomans A., Cornelis K., Baert P., Gillis M. (2002). "Use of the Verrucomicrobia-specific probe EUB338-III and fluorescent in situ hybridization for detection of “Candidatus Xiphinematobacter” cells in nematode hosts". Applied and Environmental Microbiology Vol 68, 3121-3125. http://dx.doi.org/10.1128/AEM.68.6.3121-3125.2002
61. Vrain T.C. (1993). "Restriction fragment length polymorphism separates species of the Xiphinema americanum group". Journal of Nematology Vol 25, 361-364.
62. Vrain T.C., Wakarchuk D.A., Levesque C.A., Hamilton R.I. (1992). "Intraspecific rDNA restriction fragment length polymorphism in the Xiphinema americanum group". Fundamental and Applied Nematology Vol 15, 563-573.
63. Ye W., Szalanski A.L., Robbins R.T. (2004). "Phylogenetic relationships and genetic variation in Longidorus and Xiphinema species (Nematoda: Longidoridae) using ITS1 sequences of nuclear ribosomal DNA". Journal of Nematology Vol 36, 14-19.
64. Zasada I.A., Peetz A., Howe D.K., Wilhelm L.J., Cheam D., Denver D.R., Smythe A.B. (2014). "Using mitogenomic and nuclear ribosomal sequence data to investigate the phylogeny of the Xiphinema americanum species complex". PLoS ONE Vol 9, e90035. http://dx.doi.org/10.1371/journal.pone.0090035
http://brill.metastore.ingenta.com/content/journals/10.1163/15685411-00003012
Loading

Article metrics loading...

/content/journals/10.1163/15685411-00003012
2016-10-05
2018-06-22

Sign-in

Can't access your account?
  • Tools

  • Add to Favorites
  • Printable version
  • Email this page
  • Subscribe to ToC alert
  • Get permissions
  • Recommend to your library

    You must fill out fields marked with: *

    Librarian details
    Your details
    Why are you recommending this title?
    Select reason:
     
    Nematology — Recommend this title to your library
  • Export citations
  • Key

  • Full access
  • Open Access
  • Partial/No accessInformation