Malaria Diagnostics and Surveillance in the Post-Genomic Era

被引：9

作者：

Lucchi, N. W. ^{[1
]}

Oberstaller, J. ^{[2
,3
]}

Kissinger, J. C. ^{[2
,3
,4
]}

Udhayakumar, V. ^{[1
]}

机构：

[1] Ctr Dis Control & Prevent, Malaria Branch, Div Parasit Dis & Malaria, Ctr Global Hlth, Atlanta, GA 30333 USA

[2] Univ Georgia, Dept Genet, Athens, GA 30602 USA

[3] Univ Georgia, Ctr Trop & Emerging Global Dis, Athens, GA 30602 USA

[4] Univ Georgia, Inst Bioinformat, Athens, GA 30602 USA

来源：

PUBLIC HEALTH GENOMICS | 2013年 / 16卷 / 1-2期

关键词：

Bioinformatics; Diagnosis; Genome; Malaria; Molecular tools; PLASMODIUM-FALCIPARUM; PARASITE; REGION; AMPLIFICATION; RESISTANCE; SEQUENCE; KNOWLESI; TESTS; BLOOD; VIVAX;

D O I：

10.1159/000345607

中图分类号：

Q3 [遗传学];

学科分类号：

071007 ; 090102 ;

摘要：

Genome sequences are available for 3 human-infecting malaria parasites, Plasmodium falciparum, P. vivax and P. knowlesi, and population genomics data are available for many endemic regions. This review summarizes how genomic data have been used to develop new, species-specific molecular targets for better malaria diagnosis. The combination of bioinformatics and genomics has been used to identify new sequence targets suitable for diagnostic applications and assess their viability within the context of global Plasmodium sequence variation. The selection criteria maximized the sensitivity and specificity of the novel targets. At least one target from each species was found to be suitable for molecular diagnosis of malaria with some advantages over existing molecular methods. The promise of using genome sequence data to develop sensitive, genus-or species-specific diagnostic methods for other pathogens of public health interest is strong. This undertaking together with what we envision as the future of malaria diagnosis in the 'omic' era is discussed. Copyright (C) 2013 S. Karger AG, Basel

引用

页码：37 / 43

页数：7

共 32 条

[1]

[Anonymous], WORLD MAL REP 2010

[2] PlasmoDB: a functional genomic database for malaria parasites [J].

Aurrecoechea, Cristina ;

Brestelli, John ;

Brunk, Brian P. ;

Dommer, Jennifer ;

Fischer, Steve ;

Gajria, Bindu ;

Gao, Xin ;

Gingle, Alan ;

Grant, Greg ;

Harb, Omar S. ;

Heiges, Mark ;

Innamorato, Frank ;

Iodice, John ;

Kissinger, Jessica C. ;

Kraemer, Eileen ;

Li, Wei ;

Miller, John A. ;

Nayak, Vishal ;

Pennington, Cary ;

Pinney, Deborah F. ;

Roos, David S. ;

Ross, Chris ;

Stoeckert, Christian J., Jr. ;

Treatman, Charles ;

Wang, Haiming .

NUCLEIC ACIDS RESEARCH, 2009, 37 :D539-D543

[3] Epidemiology and Infectivity of Plasmodium falciparum and Plasmodium vivax Gametocytes in Relation to Malaria Control and Elimination [J].

Bousema, Teun ;

Drakeley, Chris .

CLINICAL MICROBIOLOGY REVIEWS, 2011, 24 (02) :377-+

[4] Comparative genomics of the neglected human malaria parasite Plasmodium vivax [J].

Carlton, Jane M. ;

Adams, John H. ;

Silva, Joana C. ;

Bidwell, Shelby L. ;

Lorenzi, Hernan ;

Caler, Elisabet ;

Crabtree, Jonathan ;

Angiuoli, Samuel V. ;

Merino, Emilio F. ;

Amedeo, Paolo ;

Cheng, Qin ;

Coulson, Richard M. R. ;

Crabb, Brendan S. ;

del Portillo, Hernando A. ;

Essien, Kobby ;

Feldblyum, Tamara V. ;

Fernandez-Becerra, Carmen ;

Gilson, Paul R. ;

Gueye, Amy H. ;

Guo, Xiang ;

Kang'a, Simon ;

Kooij, Taco W. A. ;

Korsinczky, Michael ;

Meyer, Esmeralda V. -S. ;

Nene, Vish ;

Paulsen, Ian ;

White, Owen ;

Ralph, Stuart A. ;

Ren, Qinghu ;

Sargeant, Tobias J. ;

Salzberg, Steven L. ;

Stoeckert, Christian J. ;

Sullivan, Steven A. ;

Yamamoto, Marcio M. ;

Hoffman, Stephen L. ;

Wortman, Jennifer R. ;

Gardner, Malcolm J. ;

Galinski, Mary R. ;

Barnwell, John W. ;

Fraser-Liggett, Claire M. .

NATURE, 2008, 455 (7214) :757-763

[5] A Major Genome Region Underlying Artemisinin Resistance in Malaria [J].

Cheeseman, Ian H. ;

Miller, Becky A. ;

Nair, Shalini ;

Nkhoma, Standwell ;

Tan, Asako ;

Tan, John C. ;

Al Saai, Salma ;

Phyo, Aung Pyae ;

Moo, Carit Ler ;

Lwin, Khin Maung ;

McGready, Rose ;

Ashley, Elizabeth ;

Imwong, Mallika ;

Stepniewska, Kasia ;

Yi, Poravuth ;

Dondorp, Arjen M. ;

Mayxay, Mayfong ;

Newton, Paul N. ;

White, Nicholas J. ;

Nosten, Francois ;

Ferdig, Michael T. ;

Anderson, Timothy J. C. .

SCIENCE, 2012, 336 (6077) :79-82

[6] Rapid Identification of Genetic Modifications in Bacillus anthracis Using Whole Genome Draft Sequences Generated by 454 Pyrosequencing [J].

Chen, Peter E. ;

Willner, Kristin M. ;

Butani, Amy ;

Dorsey, Shakia ;

George, Matroner ;

Stewart, Andrew ;

Lentz, Shannon M. ;

Cook, Christopher E. ;

Akmal, Arya ;

Price, Lance B. ;

Keim, Paul S. ;

Mateczun, Alfred ;

Brahmbhatt, Trupti N. ;

Bishop-Lilly, Kimberly A. ;

Zwick, Michael E. ;

Read, Timothy D. ;

Sozhamannan, Shanmuga .

PLOS ONE, 2010, 5 (08)

[7] A general SNP-based molecular barcode for Plasmodium falciparum identification and tracking [J].

Daniels, Rachel ;

Volkman, Sarah K. ;

Milner, Danny A. ;

Mahesh, Nira ;

Neafsey, Daniel E. ;

Park, Daniel J. ;

Rosen, David ;

Angelino, Elaine ;

Sabeti, Pardis C. ;

Wirth, Dyann F. ;

Wiegand, Roger C. .

MALARIA JOURNAL, 2008, 7 (1)

[8] Applied Genomics: Data Mining Reveals Species-Specific Malaria Diagnostic Targets More Sensitive than 18S rRNA [J].

Demas, Allison ;

Oberstaller, Jenna ;

DeBarry, Jeremy ;

Lucchi, Naomi W. ;

Srinivasamoorthy, Ganesh ;

Sumari, Deborah ;

Kabanywanyi, Abdunoor M. ;

Villegas, Leopoldo ;

Escalante, Ananias A. ;

Kachur, S. Patrick ;

Barnwell, John W. ;

Peterson, David S. ;

Udhayakumar, Venkatachalam ;

Kissinger, Jessica C. .

JOURNAL OF CLINICAL MICROBIOLOGY, 2011, 49 (07) :2411-2418

[9]

Erdman Laura K, 2008, Travel Med Infect Dis, V6, P82, DOI 10.1016/j.tmaid.2007.10.001

[10] A Large Proportion of P. falciparum Isolates in the Amazon Region of Peru Lack pfhrp2 and pfhrp3: Implications for Malaria Rapid Diagnostic Tests [J].

Gamboa, Dionicia ;

Ho, Mei-Fong ;

Bendezu, Jorge ;

Torres, Katherine ;

Chiodini, Peter L. ;

Barnwell, John W. ;

Incardona, Sandra ;

Perkins, Mark ;

Bell, David ;

McCarthy, James ;

Cheng, Qin .

PLOS ONE, 2010, 5 (01)

← 1 2 3 4 →