Pilot survey of expressed sequence tags (ESTs) from the asexual blood stages of Plasmodium vivax in human patients
Abstract Background Plasmodium vivax is the most widely distributed human malaria, responsible for 70–80 million clinical cases each year and large socio-economical burdens for countries such as Brazil where it is the most prevalent species. Unfortunately, due to the impossibility of growing this pa...
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ftdoajarticles:oai:doaj.org/article:81246aeded6c4669af5a015156f55da8 2023-05-15T15:16:21+02:00 Pilot survey of expressed sequence tags (ESTs) from the asexual blood stages of Plasmodium vivax in human patients Gruber Arthur Durham Alan Machado Ariane L Madeira Alda MBN Fernandez-Becerra Carmen Merino Emilio F Hall Neil del Portillo Hernando A 2003-07-01T00:00:00Z https://doi.org/10.1186/1475-2875-2-21 https://doaj.org/article/81246aeded6c4669af5a015156f55da8 EN eng BMC http://www.malariajournal.com/content/2/1/21 https://doaj.org/toc/1475-2875 doi:10.1186/1475-2875-2-21 1475-2875 https://doaj.org/article/81246aeded6c4669af5a015156f55da8 Malaria Journal, Vol 2, Iss 1, p 21 (2003) Arctic medicine. Tropical medicine RC955-962 Infectious and parasitic diseases RC109-216 article 2003 ftdoajarticles https://doi.org/10.1186/1475-2875-2-21 2022-12-31T01:27:37Z Abstract Background Plasmodium vivax is the most widely distributed human malaria, responsible for 70–80 million clinical cases each year and large socio-economical burdens for countries such as Brazil where it is the most prevalent species. Unfortunately, due to the impossibility of growing this parasite in continuous in vitro culture, research on P. vivax remains largely neglected. Methods A pilot survey of expressed sequence tags (ESTs) from the asexual blood stages of P. vivax was performed. To do so, 1,184 clones from a cDNA library constructed with parasites obtained from 10 different human patients in the Brazilian Amazon were sequenced. Sequences were automatedly processed to remove contaminants and low quality reads. A total of 806 sequences with an average length of 586 bp met such criteria and their clustering revealed 666 distinct events. The consensus sequence of each cluster and the unique sequences of the singlets were used in similarity searches against different databases that included P. vivax , Plasmodium falciparum , Plasmodium yoelii , Plasmodium knowlesi , Apicomplexa and the GenBank non-redundant database. An E-value of <10 -30 was used to define a significant database match. ESTs were manually assigned a gene ontology (GO) terminology Results A total of 769 ESTs could be assigned a putative identity based upon sequence similarity to known proteins in GenBank. Moreover, 292 ESTs were annotated and a GO terminology was assigned to 164 of them. Conclusion These are the first ESTs reported for P. vivax and, as such, they represent a valuable resource to assist in the annotation of the P. vivax genome currently being sequenced. Moreover, since the GC-content of the P. vivax genome is strikingly different from that of P. falciparum , these ESTs will help in the validation of gene predictions for P. vivax and to create a gene index of this malaria parasite. Article in Journal/Newspaper Arctic Directory of Open Access Journals: DOAJ Articles Arctic Malaria Journal 2 1 21 |
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Directory of Open Access Journals: DOAJ Articles |
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Arctic medicine. Tropical medicine RC955-962 Infectious and parasitic diseases RC109-216 |
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Arctic medicine. Tropical medicine RC955-962 Infectious and parasitic diseases RC109-216 Gruber Arthur Durham Alan Machado Ariane L Madeira Alda MBN Fernandez-Becerra Carmen Merino Emilio F Hall Neil del Portillo Hernando A Pilot survey of expressed sequence tags (ESTs) from the asexual blood stages of Plasmodium vivax in human patients |
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Arctic medicine. Tropical medicine RC955-962 Infectious and parasitic diseases RC109-216 |
description |
Abstract Background Plasmodium vivax is the most widely distributed human malaria, responsible for 70–80 million clinical cases each year and large socio-economical burdens for countries such as Brazil where it is the most prevalent species. Unfortunately, due to the impossibility of growing this parasite in continuous in vitro culture, research on P. vivax remains largely neglected. Methods A pilot survey of expressed sequence tags (ESTs) from the asexual blood stages of P. vivax was performed. To do so, 1,184 clones from a cDNA library constructed with parasites obtained from 10 different human patients in the Brazilian Amazon were sequenced. Sequences were automatedly processed to remove contaminants and low quality reads. A total of 806 sequences with an average length of 586 bp met such criteria and their clustering revealed 666 distinct events. The consensus sequence of each cluster and the unique sequences of the singlets were used in similarity searches against different databases that included P. vivax , Plasmodium falciparum , Plasmodium yoelii , Plasmodium knowlesi , Apicomplexa and the GenBank non-redundant database. An E-value of <10 -30 was used to define a significant database match. ESTs were manually assigned a gene ontology (GO) terminology Results A total of 769 ESTs could be assigned a putative identity based upon sequence similarity to known proteins in GenBank. Moreover, 292 ESTs were annotated and a GO terminology was assigned to 164 of them. Conclusion These are the first ESTs reported for P. vivax and, as such, they represent a valuable resource to assist in the annotation of the P. vivax genome currently being sequenced. Moreover, since the GC-content of the P. vivax genome is strikingly different from that of P. falciparum , these ESTs will help in the validation of gene predictions for P. vivax and to create a gene index of this malaria parasite. |
format |
Article in Journal/Newspaper |
author |
Gruber Arthur Durham Alan Machado Ariane L Madeira Alda MBN Fernandez-Becerra Carmen Merino Emilio F Hall Neil del Portillo Hernando A |
author_facet |
Gruber Arthur Durham Alan Machado Ariane L Madeira Alda MBN Fernandez-Becerra Carmen Merino Emilio F Hall Neil del Portillo Hernando A |
author_sort |
Gruber Arthur |
title |
Pilot survey of expressed sequence tags (ESTs) from the asexual blood stages of Plasmodium vivax in human patients |
title_short |
Pilot survey of expressed sequence tags (ESTs) from the asexual blood stages of Plasmodium vivax in human patients |
title_full |
Pilot survey of expressed sequence tags (ESTs) from the asexual blood stages of Plasmodium vivax in human patients |
title_fullStr |
Pilot survey of expressed sequence tags (ESTs) from the asexual blood stages of Plasmodium vivax in human patients |
title_full_unstemmed |
Pilot survey of expressed sequence tags (ESTs) from the asexual blood stages of Plasmodium vivax in human patients |
title_sort |
pilot survey of expressed sequence tags (ests) from the asexual blood stages of plasmodium vivax in human patients |
publisher |
BMC |
publishDate |
2003 |
url |
https://doi.org/10.1186/1475-2875-2-21 https://doaj.org/article/81246aeded6c4669af5a015156f55da8 |
geographic |
Arctic |
geographic_facet |
Arctic |
genre |
Arctic |
genre_facet |
Arctic |
op_source |
Malaria Journal, Vol 2, Iss 1, p 21 (2003) |
op_relation |
http://www.malariajournal.com/content/2/1/21 https://doaj.org/toc/1475-2875 doi:10.1186/1475-2875-2-21 1475-2875 https://doaj.org/article/81246aeded6c4669af5a015156f55da8 |
op_doi |
https://doi.org/10.1186/1475-2875-2-21 |
container_title |
Malaria Journal |
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2 |
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1 |
container_start_page |
21 |
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1766346637693681664 |