Introduction to Nematode Genome and Transcriptome Announcements in the Journal of Nematology

Dee R. Denver; Erik J. Ragsdale; W. Kelley Thomas; Inga A. Zasada

doi:10.21307/jofnem-2017-053

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Introduction to Nematode Genome and Transcriptome Announcements in the Journal of Nematology

Journal of Nematology

Volume 49 (2017): Issue 2 (January 2017)

By: Dee R. Denver, Erik J. Ragsdale, W. Kelley Thomas and Inga A. Zasada

Open Access

|Jul 2017

Abstract

The Journal of Nematology now offers publication of Nematode Genome Announcements (NGA) and Nematode Transcriptome Announcements (NTA). These brief reports announce the sequencing and assembly of a nematode genome or transcriptome resource, along with basic technical information on DNA sequencing and bioinformatic methods used. This publishing initiative offers a new avenue to openly and concisely communicate the availability and relevance of genome and transcriptome sequence resources to the broader scientific community.

References

Abad, P., Gouzy, J., Aury, J. M., Castagnone-Sereno, P., Danchin, E. G., Deleury, E., Perfus-Barbeoch, L., Anthouard, V., Artiguenave, F., Blok, V. C., Caillaud, M. C., Coutinho, P. M., Dasilva, C., De Luca, F., Deau, F., Esquibet, M., Flutre, T., Goldstone, J. V., Hamamouch, N., Hewezi, T., Jaillon, O., Jubin, C., Leonetti, P., Magliano, M., Maier, T. R., Markov, G. V., McVeigh, P., Pesole, G., Poulain, J., Robinson-Rechavi, M., Sallet, E., S’egurens, B., Steinbach, D., Tytgat, T., Ugarte, E., van Ghelder, C., Veronico, P., Baum, T. J., Blaxter, M., Bleve-Zacheo, T., Davis, E. L., Ewbank, J. J., Favery, B., Grenier, E., Henrissat, B., Jones, J. T., Laudet, V., Maule, A. G., Quesneville, H., Rosso, M. N., Schiex, T., Smant, G., Weissenbach, J., and Wincker, P. 2008. Genome sequence of the metazoan plant-parasitic nematode Meloidogyne incognita. Nature Biotechnology 26:909–915.10.1038/nbt.148218660804
Search in Google Scholar Back to article
Bai, X., Adams, B. J., Ciche, T. A., Clifton, S., Gaugler, R., Kim, K., Spieth, J., Sternberg, P. W., Wilson, R. K., and Grewal, P. S. 2013. A lover and a fighter: The genome sequence of an entomopathogenic nematode Heterorhabditis bacteriophora. PLoS One 8:e69618.10.1371/journal.pone.0069618371549423874975
Search in Google Scholar Back to article
C. elegans Sequencing Consortium. 1998. Genome sequence of the nematode C. elegans: a platform for investigating biology. Science 282:2012–2018.
Search in Google Scholar Back to article
Cotton, J. A., Lilley, C. J., Jones, L. M., Kikuchi, T., Reid, A. J., Thorpe, P., Tsai, I. J., Beasley, H., Blok, V., Cock, P. J. A., Eves-van den Akker, S., Holroyd, N., Hunt, M., Mantelin, S., Naghra, H., Pain, A., Palomeres-Rius, J. E., Zarowiecki, M., Berriman, M., Jones, J. T., and Urwin, P. E. 2014. The genome and life-stage specific transcriptomes of Globodera pallida elucidate key aspects of plant parasitism by a cyst nematode. Genome Biology 15:R43.10.1186/gb-2014-15-3-r43405485724580726
Search in Google Scholar Back to article
Dieterich, C., Clifton, S. W., Schuster, L. N., Chinwalla, A., Delehaunty, K., Dinkelacker, I., Fulton, L., Fulton, R., Godfrey, J., Minx, P., Mitreva, M., Roeseler, W., Tian, H., Witte, H., Yang, S. P., Wilson, R. K., and Sommer, R. J. 2008. The Pristionchus pacificus genome provides a unique perspective on nematode lifestyle and parasitism. Nature Genetics 40:1193–1198.10.1038/ng.227381684418806794
Search in Google Scholar Back to article
Dillman, A. R., Macchietto, M., Porter, C. F., Rogers, A., Williams, B., Antonshechkin, I., Lee, M.-M., Goodwin, Z., Lu, X., Lewis, E. E., Goodrich-Blair, H., Stock, P., Adams, B., Sternberg, P. W., and Mortazavi, A. 2015. Comparative genomics of Steinernema reveals deeply conserved gene regulatory networks. Genome Biology 16:200.10.1186/s13059-015-0746-6457876226392177
Search in Google Scholar Back to article
Ghedin, E., Wang, S., Spiro, D., Caler, E., Zhao, Q., Crabtree, J., Allen, J. E., Delcher, A. L., Guiliano, D. B., Miranda-Saavedra, D., Angiuoli, S. V., Creasy, T., Amedeo, P., Haas, B., El-Sayed, N. M., Wortman, J. R., Feldblyum, T., Tallon, L., Schatz, M., Shumway, M., Koo, H., Salzberg, S. L., Schobel, S., Pertea, M., Pop, M., White, O., Barton, G. J., Carlow, C. K., Crawford, M. J., Daub, J., Dimmic, M. W., Estes, C. F., Foster, J. M., Ganatra, M., Gregory, W. F., Johnson, N. M., Jin, J., Komuniecki, R., Korf, I., Kumar, S., Laney, S., Li, B. W., Li, W., Lindblom, T. H., Lustigman, S., Ma, D., Maina, C. V., Martin, D. M., McCarter, J. P., McReynolds, L., Mitreva, M., Nutman, T. B., Parkinson, J., Peregr’ın-Alvarez, J. M., Poole, C., Ren, Q., Saunders, L., Sluder, A. E., Smith, K., Stanke, M., Unnasch, T. R., Ware, J., Wei, A. D., Weil, G., Williams, D. J., Zhang, Y., Williams, S. A., Fraser-Liggett, C., Slatko, B., Blaxter, M. L., and Scott, A. L. 2007. Draft genome of the filarial nematode parasite Brugia malayi. Science 317:1756–1760.10.1126/science.1145406261379617885136
Search in Google Scholar Back to article
Hunt, V. L., Tsai, I. J., Coghlan, A., Reid, A. J., Holroyd, N., Foth, B. J., Tracey, A., Cotton, J. A., Stanley, E. J., Beasley, H., Bennett, H. M., Brooks, K., Harsha, B., Kajitani, R., Kulkarni, A., Harbecke, D., Nagayasu, E., Nichol, S., Ogura, Y., Quail, M. A., Randle, N., Xia, D., Brattig, N. W., Soblik, H., Ribeiro, D. M., Sanchez-Flores, A., Hayashi, T., Itoh, T., Denver, D. R., Grant, W., Stoltzfus, J. D., Lok, J. B., Murayama, H., Wastling, J., Streit, A., Kikuchi, T., Viney, M., and Berriman, M. 2016. The genomic basis of parasitism in the Strongyloides clade of nematodes. Nature Genetics 48:299–307.10.1038/ng.3495494805926829753
Search in Google Scholar Back to article
Smith, D. R. 2016. Goodbye genome paper, hello genome report: the increasing popularity of ‘genome announcements’ and their impact on science. Briefings in Functional Genomics 16:156–162.10.1093/bfgp/elw026543928627339634
Search in Google Scholar Back to article
Stein, L. D., Bao, Z., Blasiar, D., Blumenthal, T., Brent, M. R., Chen, N., Chinwalla, A., Clarke, L., Clee, C., Coghlan, A., Coulson, A., D’Eustachio, P., Fitch, D. H., Fulton, L. A., Fulton, R. E., Griffiths-Jones, S., Harris, T. W., Hillier, L. W., Kamath, R., Kuwabara, P. E., Mardis, E. R., Marra, M. A., Miner, T. L., Minx, P., Mullikin, J. C., Plumb, R. W., Rogers, J., Schein, J. E., Sohrmann, M., Spieth, J., Stajich, J. E., Wei, C., Willey, D., Wilson, R. K., Durbin, R., and Waterston, R. H. 2003. The genome sequence of Caenorhabditis briggsae: a platform for comparative genomics. PLoS Biology 1:E45.10.1371/journal.pbio.000004526189914624247
Search in Google Scholar Back to article

Articles in this issue

DOI: https://doi.org/10.21307/jofnem-2017-053 | Journal eISSN: 2640-396X | Journal ISSN: 0022-300X

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Language: English

Page range: 125 - 126

Submitted on: Feb 1, 2017

Published on: Jul 24, 2017

Published by: Society of Nematologists, Inc.

In partnership with: Paradigm Publishing Services

Publication frequency: 1 issue per year

Keywords:

bioinformatics,

DNA sequencing,

genomics,

scientific publishing,

transcriptome

Related subjects:

Life sciences,

Life sciences, other

© 2017 Dee R. Denver, Erik J. Ragsdale, W. Kelley Thomas, Inga A. Zasada, published by Society of Nematologists, Inc.
This work is licensed under the Creative Commons Attribution 4.0 License.

Volume 49 (2017): Issue 2 (January 2017)