Otwarty dostęp

A draft transcriptome of a parasite Neocamacolaimus parasiticus (Camacolaimidae, Plectida)


Zacytuj

Buchfink, B., Xie, C. and Huson, D. H. 2015. Fast and sensitive protein alignment using DIAMOND. Nature Methods 12:59–60, doi: 10.1038/nmeth.3176. Buchfink B. Xie C. and Huson D. H. 2015 . Fast and sensitive protein alignment using DIAMOND . Nature Methods 12 : 59 60 , doi: 10.1038/nmeth.3176 . 25402007 Open DOISearch in Google Scholar

Chen, S., Zhou, Y., Chen, Y. and Gu, J. 2018. fastp: an ultra-fast all-in-one FASTQ preprocessor. Bioinformatics 34:i884–i890, doi: 10.1093/bioinformatics/bty560. Chen S. Zhou Y. Chen Y. and Gu J. 2018 . fastp: an ultra-fast all-in-one FASTQ preprocessor . Bioinformatics 34 : i884 i890 , doi: 10.1093/bioinformatics/bty560 . 612928130423086 Open DOISearch in Google Scholar

Grabherr, M. G., Haas, B. J., Yassour, M., Levin, J. Z., Thompson, D. A., Amit, I., Adiconis, X., Fan, L., Raychowdhury, R., Zeng, Q., Chen, Z., Mauceli, E., Hacohen, N., Gnirke, A., Rhind, N., di Palma, F., Birren, B. W., Nusbaum, C., Lindblad-Toh, K., Friedman, N. and Regev, A. 2011. Full-length transcriptome assembly from RNA-Seq data without a reference genome. Nature Biotechnology 29:644–652, doi: 10.1038/nbt.1883. Grabherr M. G. Haas B. J. Yassour M. Levin J. Z. Thompson D. A. Amit I. Adiconis X. Fan L. Raychowdhury R. Zeng Q. Chen Z. Mauceli E. Hacohen N. Gnirke A. Rhind N. di Palma F. Birren B. W. Nusbaum C. Lindblad-Toh K. Friedman N. and Regev A. 2011 . Full-length transcriptome assembly from RNA-Seq data without a reference genome . Nature Biotechnology 29 : 644 652 , doi: 10.1038/nbt.1883 . 357171221572440 Open DOISearch in Google Scholar

Harris, T. W., Arnaboldi, V., Cain, S., Chan, J., Chen, W. J., Cho, J., Davis, P., Gao, S., Grove, C. A., Kishore, R., Lee, R. Y. N., Muller, H. -M., Nakamura, C., Nuin, P., Paulini, M., Raciti, D., Rodgers, F. H., Russell, M., Schindelman, G., Auken, K. V., Wang, Q., Williams, G., Wright, A. J., Yook, K., Howe, K. L., Schedl, T., Stein, L. and Sternberg, P. W. 2020. WormBase: a modern model organism information resource. Nucleic Acids Research 48:D762–D767, doi: 10.1093/nar/gkz920. Harris T. W. Arnaboldi V. Cain S. Chan J. Chen W. J. Cho J. Davis P. Gao S. Grove C. A. Kishore R. Lee R. Y. N. Muller H. -M. Nakamura C. Nuin P. Paulini M. Raciti D. Rodgers F. H. Russell M. Schindelman G. Auken K. V. Wang Q. Williams G. Wright A. J. Yook K. Howe K. L. Schedl T. Stein L. and Sternberg P. W. 2020 . WormBase: a modern model organism information resource . Nucleic Acids Research 48 : D762 D767 , doi: 10.1093/nar/gkz920 . 714559831642470 Open DOISearch in Google Scholar

Higgins, R. P. and Thiel, H. 1988. Introduction to the study of meiofauna Smithsonian Institution Press, Washington, DC. Higgins R. P. and Thiel H. 1988 . Introduction to the study of meiofauna Smithsonian Institution Press , Washington, DC . Search in Google Scholar

Holovachov, O. 2014. 7.16 “Order Plectida Gadea, 1973”, In Schmidt-Rhaesa, A. (Ed.), Handbook of Zoology. Gastrotricha, Cycloneuralia, Gnathifera. Volume 2: Nematoda, Berlin: De Gruyter, pp. 487–535. Holovachov O. 2014 . 7.16 “Order Plectida Gadea, 1973 ”, In Schmidt-Rhaesa, A. (Ed.) , Handbook of Zoology. Gastrotricha, Cycloneuralia, Gnathifera. Volume 2: Nematoda , Berlin: De Gruyter , pp. 487–535 . Search in Google Scholar

Holovachov, O. 2015. Swedish Plectida (Nematoda). Part 8. The genus Onchium Cobb, 1920. Zootaxa 3911:521–546. Holovachov O. 2015 . Swedish Plectida (Nematoda). Part 8. The genus Onchium Cobb, 1920 . Zootaxa 3911 : 521 546 . 10.11646/zootaxa.3911.4.325661628 Search in Google Scholar

Holovachov, O. and Boström, S. 2014. Swedish Plectida (Nematoda). Part 6. Neocamacolaimus gen. n., sp. n. Zootaxa 3821:538–550. Holovachov O. and Boström S. 2014 . Swedish Plectida (Nematoda). Part 6. Neocamacolaimus gen. n., sp. n . Zootaxa 3821 : 538 550 . 10.11646/zootaxa.3821.5.224989765 Search in Google Scholar

Hope, W. D. and Tchesunov, A. V. 1999. Smithsoninema inaequale n. g. and n. sp. (Nematoda, Leptolaimidae) inhabiting the test of a foraminiferan. Invertebrate Biology 118:95–118, doi: 10.2307/3227052. Hope W. D. and Tchesunov A. V. 1999 . Smithsoninema inaequale n. g. and n. sp. (Nematoda, Leptolaimidae) inhabiting the test of a foraminiferan . Invertebrate Biology 118 : 95 118 , doi: 10.2307/3227052 . Open DOISearch in Google Scholar

Huang, X., Xu, C., Yang, S., Li, J., Wang, H., Zhang, Z., Chen, C. and Xie, H. 2019. Life-stage specific transcriptomes of a migratory endoparasitic plant nematode, Radopholus similis elucidate a different parasitic and life strategy of plant parasitic nematodes. Scientific Reports 9:6277, doi: 10.1038/s41598-019-42724-7. Huang X. Xu C. Yang S. Li J. Wang H. Zhang Z. Chen C. and Xie H. 2019 . Life-stage specific transcriptomes of a migratory endoparasitic plant nematode, Radopholus similis elucidate a different parasitic and life strategy of plant parasitic nematodes . Scientific Reports 9 : 6277 , doi: 10.1038/s41598-019-42724-7 . 647238031000750 Open DOISearch in Google Scholar

Leduc, D. and Zhao, Z. Q. 2019. Phylogenetic position of the parasitic nematode Trophomera (Nematoda, Benthimermithidae): a molecular analysis. Molecular Phylogenetics and Evolution 132:177–182, doi: 10.1016/j.ympev.2018.12.005. Leduc D. and Zhao Z. Q. 2019 . Phylogenetic position of the parasitic nematode Trophomera (Nematoda, Benthimermithidae): a molecular analysis . Molecular Phylogenetics and Evolution 132 : 177 182 , doi: 10.1016/j.ympev.2018.12.005 . 30528082 Open DOISearch in Google Scholar

Miljutin, D. and Miljutina, M. 2016. Nematodes dwelling in marine protists. Marine Biodiversity 46:23–24, doi: 10.1007/s12526-015-0352-6. Miljutin D. and Miljutina M. 2016 . Nematodes dwelling in marine protists . Marine Biodiversity 46 : 23 24 , doi: 10.1007/s12526-015-0352-6 . Open DOISearch in Google Scholar

Phillips, W. S., Howe, D. K., Brown, A. M., Eves-Van Den Akker, S., Dettwyler, L., Peetz, A. B., Denver, D. R. and Zasada, I. A. 2017. The draft genome of Globodera ellingtonae. Journal of Nematology 49:127–128, doi: 10.21307/jofnem-2017-054. Phillips W. S. Howe D. K. Brown A. M. Eves-Van Den Akker S. Dettwyler L. Peetz A. B. Denver D. R. and Zasada I. A. 2017 . The draft genome of Globodera ellingtonae . Journal of Nematology 49 : 127 128 , doi: 10.21307/jofnem-2017-054 . 550713028706309 Open DOISearch in Google Scholar

Shen, W., Le, S., Li, Y. and Hu, F. 2016. SeqKit: A Cross-Platform and Ultrafast Toolkit for FASTA/Q File Manipulation. PLoS ONE 11:e0163962, doi: 10.1371/journal.pone.0163962. Shen W. Le S. Li Y. and Hu F. 2016 . SeqKit: A Cross-Platform and Ultrafast Toolkit for FASTA/Q File Manipulation . PLoS ONE 11 : e0163962 , doi: 10.1371/journal.pone.0163962 . 505182427706213 Open DOISearch in Google Scholar

Simion, P., Belkhir, K., François, C., Veyssier, J., Rink, J. C., Manul, M., Philipp, H. and Telford, M. J. 2018. A software tool ‘CroCo’ detects pervasive cross-species contamination in next generation sequencing data. BMC Biology 16:28, doi: 10.1186/s12915-018-0486-7. Simion P. Belkhir K. François C. Veyssier J. Rink J. C. Manul M. Philipp H. and Telford M. J. 2018 . A software tool ‘CroCo’ detects pervasive cross-species contamination in next generation sequencing data . BMC Biology 16 : 28 , doi: 10.1186/s12915-018-0486-7 . 583895229506533 Open DOISearch in Google Scholar

Smith-Unna, R., Boursnell, C., Patro, R., Hibberd, J. M. and Kelly, S. 2016. TransRate: reference-free quality assessment of de novo transcriptome assemblies. Genome Research 26:1134–1144. Smith-Unna R. Boursnell C. Patro R. Hibberd J. M. and Kelly S. 2016 . TransRate: reference-free quality assessment of de novo transcriptome assemblies . Genome Research 26 : 1134 1144 . 10.1101/gr.196469.115497176627252236 Search in Google Scholar

Smythe, A. B., Holovachov, O. and Kocot, K. M. 2019. Improved phylogenomic sampling of free- living nematodes enhances resolution of higher-level nematode phylogeny. BMC Evolutionary Biology 19:121, doi: org/10.1186/s12862-019-1444-x. Smythe A. B. Holovachov O. and Kocot K. M. 2019 . Improved phylogenomic sampling of free- living nematodes enhances resolution of higher-level nematode phylogeny . BMC Evolutionary Biology 19 : 121 , doi: org/10.1186/s12862-019-1444-x. 10.1186/s12862-019-1444-x656751531195978 Search in Google Scholar

Tchesunov, A. V. 2009. Diversity and forms of evolution of the nematodes associated with marine benthic invertebrates. Uchenye Zapiski Kazanskogo gosudarstvennogo universiteta, Estestvennye nauki 151:1–17. Tchesunov A. V. 2009 . Diversity and forms of evolution of the nematodes associated with marine benthic invertebrates . Uchenye Zapiski Kazanskogo gosudarstvennogo universiteta, Estestvennye nauki 151 : 1 17 . Search in Google Scholar

Tchesunov, A. V., Miljutin, D. M. and Evseev, A. V. 2000. Multicellular parasites of protozoans. Priroda 3:6–12. Tchesunov A. V. Miljutin D. M. and Evseev A. V. 2000 . Multicellular parasites of protozoans . Priroda 3 : 6 12 . Search in Google Scholar

The UniProt Consortium. 2018. UniProt: a worldwide hub of protein knowledge. Nucleic Acids Research 47:D506–D515, doi: 10.1093/nar/gky1049. The UniProt Consortium . 2018 . UniProt: a worldwide hub of protein knowledge . Nucleic Acids Research 47 : D506 D515 , doi: 10.1093/nar/gky1049 . 632399230395287 Open DOISearch in Google Scholar

Waterhouse, R. M., Seppey, M., Simão, F. A., Manni, M., Ioannidis, P., Klioutchnikov, G., Kriventseva, E. V. and Zdobnov, E. M. 2018. BUSCO applications from quality assessments to gene prediction and phylogenomics. Molecular Biology and Evolution 35:543–548, doi: 10.1093/molbev/msx319. Waterhouse R. M. Seppey M. Simão F. A. Manni M. Ioannidis P. Klioutchnikov G. Kriventseva E. V. and Zdobnov E. M. 2018 . BUSCO applications from quality assessments to gene prediction and phylogenomics . Molecular Biology and Evolution 35 : 543 548 , doi: 10.1093/molbev/msx319 . 585027829220515 Open DOISearch in Google Scholar

Wieser, W. 1953. Die Beziehung zwischen Mundhöhlengestalt, Ernährungsweise und Vorkommen bei freilebenden marinen Nernatoden. Arkiv för Zoologi 4:439–484. Wieser W. 1953 . Die Beziehung zwischen Mundhöhlengestalt, Ernährungsweise und Vorkommen bei freilebenden marinen Nernatoden . Arkiv för Zoologi 4 : 439 484 . Search in Google Scholar

eISSN:
2640-396X
Język:
Angielski
Częstotliwość wydawania:
Volume Open
Dziedziny czasopisma:
Life Sciences, other