Plasmodium vivax Population Structure and Transmission Dynamics in Sabah Malaysia

Noor Abdullah, Bridget Barber, Timothy William, Nor Norahmad, Umi Satsu, Prem Muniandy, Zakiah Ismail, Matthew Grigg, Jenarun Jelip, Kim Piera, Lorenz Von Seidlein, Tsin Yeo, Nicholas Anstey, Ric Price, Sarah Auburn

Research output: Contribution to journalArticleResearchpeer-review

7 Downloads (Pure)

Abstract

Despite significant progress in the control of malaria in Malaysia, the complex transmission dynamics of P. vivax continue to challenge national efforts to achieve elimination. To assess the impact of ongoing interventions on P. vivax transmission dynamics in Sabah, we genotyped 9 short tandem repeat markers in a total of 97 isolates (8 recurrences) from across Sabah, with a focus on two districts, Kota Marudu (KM, n = 24) and Kota Kinabalu (KK, n = 21), over a 2 year period. STRUCTURE analysis on the Sabah-wide dataset demonstrated multiple sub-populations. Significant differentiation (FST = 0.243) was observed between KM and KK, located just 130 Km apart. Consistent with low endemic transmission, infection complexity was modest in both KM (mean MOI = 1.38) and KK (mean MOI = 1.19). However, population diversity remained moderate (HE = 0.583 in KM and HE = 0.667 in KK). Temporal trends revealed clonal expansions reflecting epidemic transmission dynamics. The haplotypes of these isolates declined in frequency over time, but persisted at low frequency throughout the study duration. A diverse array of low frequency isolates were detected in both KM and KK, some likely reflecting remnants of previous expansions. In accordance with clonal expansions, high levels of Linkage Disequilibrium (IA S >0.5 [P<0.0001] in KK and KM) declined sharply when identical haplotypes were represented once (I A S = 0.07 [P = 0.0076] in KM, and IA S = - 0.003 [P = 0.606] in KK). All 8 recurrences, likely to be relapses, were homologous to the prior infection. These recurrences may promote the persistence of parasite lineages, sustaining local diversity. In summary, Sabah's shrinking P. vivax population appears to have rendered this low endemic setting vulnerable to epidemic expansions. Migration may play an important role in the introduction of new parasite strains leading to epidemic expansions, with important implications for malaria elimination. 
Original languageEnglish
Article numbere82553
Pages (from-to)1-10
Number of pages10
JournalPLoS One
Volume8
Issue number12
DOIs
Publication statusPublished - 2013

Fingerprint

Plasmodium vivax
Malaysia
Borneo
population structure
Recurrence
malaria
Population
haplotypes
Haplotypes
Malaria
Parasites
parasites
relapse
disease transmission
linkage disequilibrium
Infectious Disease Transmission
Linkage Disequilibrium
Microsatellite Repeats
microsatellite repeats
duration

Cite this

Abdullah, Noor ; Barber, Bridget ; William, Timothy ; Norahmad, Nor ; Satsu, Umi ; Muniandy, Prem ; Ismail, Zakiah ; Grigg, Matthew ; Jelip, Jenarun ; Piera, Kim ; Von Seidlein, Lorenz ; Yeo, Tsin ; Anstey, Nicholas ; Price, Ric ; Auburn, Sarah. / Plasmodium vivax Population Structure and Transmission Dynamics in Sabah Malaysia. In: PLoS One. 2013 ; Vol. 8, No. 12. pp. 1-10.
@article{12222051c47f4d7ebc4f9207874dcc1f,
title = "Plasmodium vivax Population Structure and Transmission Dynamics in Sabah Malaysia",
abstract = "Despite significant progress in the control of malaria in Malaysia, the complex transmission dynamics of P. vivax continue to challenge national efforts to achieve elimination. To assess the impact of ongoing interventions on P. vivax transmission dynamics in Sabah, we genotyped 9 short tandem repeat markers in a total of 97 isolates (8 recurrences) from across Sabah, with a focus on two districts, Kota Marudu (KM, n = 24) and Kota Kinabalu (KK, n = 21), over a 2 year period. STRUCTURE analysis on the Sabah-wide dataset demonstrated multiple sub-populations. Significant differentiation (FST = 0.243) was observed between KM and KK, located just 130 Km apart. Consistent with low endemic transmission, infection complexity was modest in both KM (mean MOI = 1.38) and KK (mean MOI = 1.19). However, population diversity remained moderate (HE = 0.583 in KM and HE = 0.667 in KK). Temporal trends revealed clonal expansions reflecting epidemic transmission dynamics. The haplotypes of these isolates declined in frequency over time, but persisted at low frequency throughout the study duration. A diverse array of low frequency isolates were detected in both KM and KK, some likely reflecting remnants of previous expansions. In accordance with clonal expansions, high levels of Linkage Disequilibrium (IA S >0.5 [P<0.0001] in KK and KM) declined sharply when identical haplotypes were represented once (I A S = 0.07 [P = 0.0076] in KM, and IA S = - 0.003 [P = 0.606] in KK). All 8 recurrences, likely to be relapses, were homologous to the prior infection. These recurrences may promote the persistence of parasite lineages, sustaining local diversity. In summary, Sabah's shrinking P. vivax population appears to have rendered this low endemic setting vulnerable to epidemic expansions. Migration may play an important role in the introduction of new parasite strains leading to epidemic expansions, with important implications for malaria elimination. ",
keywords = "adolescent, adult, aged, article, child, endemic disease, haplotype, human, major clinical study, Malaysia, microbial diversity, nonhuman, parasite isolation, parasite migration, parasite transmission, Plasmodium vivax, Plasmodium vivax malaria, population differentiation, population structure, prevalence, recurrent disease, relapse, short tandem repeat, DNA, Protozoan, Endemic Diseases, Genetic Variation, Genotype, Humans, Linkage Disequilibrium, Malaria, Vivax, Prevalence, Recurrence",
author = "Noor Abdullah and Bridget Barber and Timothy William and Nor Norahmad and Umi Satsu and Prem Muniandy and Zakiah Ismail and Matthew Grigg and Jenarun Jelip and Kim Piera and {Von Seidlein}, Lorenz and Tsin Yeo and Nicholas Anstey and Ric Price and Sarah Auburn",
year = "2013",
doi = "10.1371/journal.pone.0082553",
language = "English",
volume = "8",
pages = "1--10",
journal = "PLoS One",
issn = "1932-6203",
publisher = "Public Library of Science (PLoS)",
number = "12",

}

Abdullah, N, Barber, B, William, T, Norahmad, N, Satsu, U, Muniandy, P, Ismail, Z, Grigg, M, Jelip, J, Piera, K, Von Seidlein, L, Yeo, T, Anstey, N, Price, R & Auburn, S 2013, 'Plasmodium vivax Population Structure and Transmission Dynamics in Sabah Malaysia', PLoS One, vol. 8, no. 12, e82553, pp. 1-10. https://doi.org/10.1371/journal.pone.0082553

Plasmodium vivax Population Structure and Transmission Dynamics in Sabah Malaysia. / Abdullah, Noor; Barber, Bridget; William, Timothy; Norahmad, Nor; Satsu, Umi; Muniandy, Prem; Ismail, Zakiah; Grigg, Matthew; Jelip, Jenarun; Piera, Kim; Von Seidlein, Lorenz; Yeo, Tsin; Anstey, Nicholas; Price, Ric; Auburn, Sarah.

In: PLoS One, Vol. 8, No. 12, e82553, 2013, p. 1-10.

Research output: Contribution to journalArticleResearchpeer-review

TY - JOUR

T1 - Plasmodium vivax Population Structure and Transmission Dynamics in Sabah Malaysia

AU - Abdullah, Noor

AU - Barber, Bridget

AU - William, Timothy

AU - Norahmad, Nor

AU - Satsu, Umi

AU - Muniandy, Prem

AU - Ismail, Zakiah

AU - Grigg, Matthew

AU - Jelip, Jenarun

AU - Piera, Kim

AU - Von Seidlein, Lorenz

AU - Yeo, Tsin

AU - Anstey, Nicholas

AU - Price, Ric

AU - Auburn, Sarah

PY - 2013

Y1 - 2013

N2 - Despite significant progress in the control of malaria in Malaysia, the complex transmission dynamics of P. vivax continue to challenge national efforts to achieve elimination. To assess the impact of ongoing interventions on P. vivax transmission dynamics in Sabah, we genotyped 9 short tandem repeat markers in a total of 97 isolates (8 recurrences) from across Sabah, with a focus on two districts, Kota Marudu (KM, n = 24) and Kota Kinabalu (KK, n = 21), over a 2 year period. STRUCTURE analysis on the Sabah-wide dataset demonstrated multiple sub-populations. Significant differentiation (FST = 0.243) was observed between KM and KK, located just 130 Km apart. Consistent with low endemic transmission, infection complexity was modest in both KM (mean MOI = 1.38) and KK (mean MOI = 1.19). However, population diversity remained moderate (HE = 0.583 in KM and HE = 0.667 in KK). Temporal trends revealed clonal expansions reflecting epidemic transmission dynamics. The haplotypes of these isolates declined in frequency over time, but persisted at low frequency throughout the study duration. A diverse array of low frequency isolates were detected in both KM and KK, some likely reflecting remnants of previous expansions. In accordance with clonal expansions, high levels of Linkage Disequilibrium (IA S >0.5 [P<0.0001] in KK and KM) declined sharply when identical haplotypes were represented once (I A S = 0.07 [P = 0.0076] in KM, and IA S = - 0.003 [P = 0.606] in KK). All 8 recurrences, likely to be relapses, were homologous to the prior infection. These recurrences may promote the persistence of parasite lineages, sustaining local diversity. In summary, Sabah's shrinking P. vivax population appears to have rendered this low endemic setting vulnerable to epidemic expansions. Migration may play an important role in the introduction of new parasite strains leading to epidemic expansions, with important implications for malaria elimination. 

AB - Despite significant progress in the control of malaria in Malaysia, the complex transmission dynamics of P. vivax continue to challenge national efforts to achieve elimination. To assess the impact of ongoing interventions on P. vivax transmission dynamics in Sabah, we genotyped 9 short tandem repeat markers in a total of 97 isolates (8 recurrences) from across Sabah, with a focus on two districts, Kota Marudu (KM, n = 24) and Kota Kinabalu (KK, n = 21), over a 2 year period. STRUCTURE analysis on the Sabah-wide dataset demonstrated multiple sub-populations. Significant differentiation (FST = 0.243) was observed between KM and KK, located just 130 Km apart. Consistent with low endemic transmission, infection complexity was modest in both KM (mean MOI = 1.38) and KK (mean MOI = 1.19). However, population diversity remained moderate (HE = 0.583 in KM and HE = 0.667 in KK). Temporal trends revealed clonal expansions reflecting epidemic transmission dynamics. The haplotypes of these isolates declined in frequency over time, but persisted at low frequency throughout the study duration. A diverse array of low frequency isolates were detected in both KM and KK, some likely reflecting remnants of previous expansions. In accordance with clonal expansions, high levels of Linkage Disequilibrium (IA S >0.5 [P<0.0001] in KK and KM) declined sharply when identical haplotypes were represented once (I A S = 0.07 [P = 0.0076] in KM, and IA S = - 0.003 [P = 0.606] in KK). All 8 recurrences, likely to be relapses, were homologous to the prior infection. These recurrences may promote the persistence of parasite lineages, sustaining local diversity. In summary, Sabah's shrinking P. vivax population appears to have rendered this low endemic setting vulnerable to epidemic expansions. Migration may play an important role in the introduction of new parasite strains leading to epidemic expansions, with important implications for malaria elimination. 

KW - adolescent

KW - adult

KW - aged

KW - article

KW - child

KW - endemic disease

KW - haplotype

KW - human

KW - major clinical study

KW - Malaysia

KW - microbial diversity

KW - nonhuman

KW - parasite isolation

KW - parasite migration

KW - parasite transmission

KW - Plasmodium vivax

KW - Plasmodium vivax malaria

KW - population differentiation

KW - population structure

KW - prevalence

KW - recurrent disease

KW - relapse

KW - short tandem repeat

KW - DNA, Protozoan

KW - Endemic Diseases

KW - Genetic Variation

KW - Genotype

KW - Humans

KW - Linkage Disequilibrium

KW - Malaria, Vivax

KW - Prevalence

KW - Recurrence

UR - http://www.scopus.com/inward/record.url?scp=84893086402&partnerID=8YFLogxK

U2 - 10.1371/journal.pone.0082553

DO - 10.1371/journal.pone.0082553

M3 - Article

VL - 8

SP - 1

EP - 10

JO - PLoS One

JF - PLoS One

SN - 1932-6203

IS - 12

M1 - e82553

ER -