# Plasmodium vivax mdr1 genotypes in isolates from successfully cured patients living in endemic and non-endemic Brazilian areas

Larissa Rodrigues Gomes, Natália Ketrin Almeida-De-Oliveira, Aline Rosa de Lavigne, Suelen Rezende Félix de Lima, Anielle de Pina-Costa, Patrícia Brasil, Cláudio Tadeu Daniel-Ribeiro, Didier Ménard, Maria de Fátima Ferreira-Da-Cruz

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Larissa Rodrigues Gomes, Natália Ketrin Almeida-De-Oliveira, Aline Rosa de Lavigne, Suelen Rezende Félix de Lima, Anielle de Pina-Costa, et al. Plasmodium vivax mdr1 genotypes in isolates from successfully cured patients living in endemic and non-endemic Brazilian areas. Malaria Journal, 2016, 15, pp.96. 10.1186/s12936-016-1141-9 . hal-02560637

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# Plasmodium vivax mdr1 genotypes in isolates from successfully cured patients living in endemic and non-endemic Brazilian areas

Larissa Rodrigues Gomes¹,<fnref n="2" />, Natália Ketrin Almeida-de-Oliveira¹,<fnref n="2" />, Aline Rosa de Lavigne¹,<fnref n="2" />, Suelen Rezende Félix de Lima¹,<fnref n="2" />, Anielle de Pina-Costa<fnref n="2" />,³, Patrícia Brasil<fnref n="2" />,³, Cláudio Tadeu Daniel-Ribeiro¹,<fnref n="2" />, Didier Ménard⁴ and Maria de Fatima Ferreira-da-Cruz¹,<fnref n="2" />*

**Abstract**

**Background:** *Plasmodium vivax* is the most widely distributed species causing the highest number of malaria cases in the world. In Brazil, *P. vivax* is responsible for approximately 84 % of reported cases. In the absence of a vaccine, control strategies are based on the management of cases through rapid diagnosis and adequate treatment, in addition to vector control measures. The approaches used to investigate *P. vivax* resistance to chloroquine (CQ) were exclusively in vivo studies because of the difficulty in keeping parasites in continuous in vitro culture. In view of the limitations related to follow-up of patients and to assessing the plasma dosage of CQ and its metabolites, an alternative approach to monitor chemo-resistance (QR) is to use molecular markers. Single nucleotide polymorphisms (SNPs) in the multidrug resistance gene *pvmdr1* are putative determinants of CQ resistance (CQR), but such SNPs in *P. vivax* isolates from patients with good response to treatment should be further explored. The aim of this study is to investigate the mutations in the gene, supposedly associated to QR, in *P. vivax* isolates from successfully cured patients, living in Brazilian endemic and non-endemic areas.

**Methods:** Blood samples were collected from 49 vivax malaria patients from endemic (Amazon Basin: 45) and non-endemic (Atlantic Forest: four) Brazilian regions and analysed for SNPs in the CQR-related *P. vivax* gene (*pvmdr1*), using PCR-based methods.

**Results:** Among the 49 isolates genetically characterized for the gene *pvmdr1*, 34 (70 %) presented at least one mutation. T958M mutant alleles were the most frequent (73 %) followed Y976F (15 %) and F1076L (12 %). Single mutation was detected in 24 (70.5 %) isolates and double mutations in ten (29.5 %). The most common single mutant genotype was the 958M/Y976/F1076 (79 %), followed by 976F/F1076 (21 %) whereas 958M/Y976/1076L (60 %) and 976F/1076L (40 %) double mutant genotypes were detected. Single mutant profile was observed only in isolates from Amazon Basin, although double mutants were found both in the Amazon and Atlantic Forest regions. Interestingly, the genotype 958M/Y976/1076L was present in all isolates from the Atlantic Forest in the Rio de Janeiro State.

**Conclusions:** Considering that primaquine (PQ) efficacy is highly dependent on concurrent administration of a blood schizontocidal agent and that PQ could not circumvent CQR, together with the fact that no *pvmdr1* mutation should be expected in successfully cured patients, these findings seem to indicate that the *pvmdr1* gene is not a

<footnote>*Correspondence: mffcruz28@gmail.com; mffcruz@ioc.fiocruz.br</footnote>

<footnote n="2">²Centro de Pesquisa, Diagnóstico e Treinamento em Malária (CPD-Mal)
Fiocruz, Rio de Janeiro, Brazil
Full list of author information is available at the end of the article</footnote>
reliable marker of CQR. Further investigations are needed to define a reliable molecular marker for monitoring *P. vivax* CQR in *P. vivax* populations.

**Keywords:** *Plasmodium vivax*, Chloroquine resistance, *pvmdr1* gene, Brazil

**Background**

Almost 40 % (approximately three billion) of the world's population is presently at risk of contracting malaria. The disease causes almost 200 million clinical cases and around 600,000 deaths each year [1, 2]. *Plasmodium vivax* is the most geographically widespread of the human malaria parasites, and a serious public health concern in South and Central America, Asia and Southwest Pacific [3].

In Brazil, endemic regions are restricted to the Legal Amazon (comprising Acre, Amapá, Amazonas, part of Maranhão, Mato Grosso, Pará, Rondonia, Roraima and Tocantis States), a region that presently accounts for 99.6 % of the countrywide malaria burden [4]. *Plasmodium vivax* is the predominant species, responsible for 84 % of the reported cases [5], PNCM, SVS, MS, unpublished data 2015. Extra-Amazonian autochthonous cases account for only 0.04 % of all Brazilian total registered and correspond to the autochthonous malaria existing in the Atlantic Forest, located along the southeastern Atlantic Coast [6].

Chloroquine resistance (CQR) is the main challenge for national malaria control programmes to control vivax malaria. The first cases of *P. vivax* resistant to chloroquine (CQ) were described in Papua New Guinea [7] and thereafter observed in Indonesia [8], Oceania, Asian [9, 10] and South American countries, including Brazil [11, 12]. In Brazil, CQ treatment failures, presumably related to CQR, have been reported [13]. The latest 28 day in vivo test conducted to assess the efficacy of standard supervised CQ therapy in 109 volunteers showed a proportion of 10.1 % of treatment failure (n = 11), despite an adequate absorption of CQ in these individuals on day 2 [14].

Molecular markers can represent a valuable tool for monitoring introduction and spread of drug resistance. Contrarily to *Plasmodium falciparum*, mutations at codons in the *pfcrt* orthologue (*pvcg10*) gene do not seem to mediate CQR in *P. vivax* [15]. On the other hand, the polymorphisms at codons Y976F and F1076L in the multidrug-resistant gene 1 (*pvmdr1*) has been described as molecular marker associated to CQR [16]. Indeed, in Thailand, Indonesia [17] and Myanmar [18], as well as in Mauritania [19] and Cambodia [20], it has been shown that 976F mutants were associated with clinical resistance to CQ. In Nepal and India, where *P. vivax* CQR has

not been recorded, prevalence of the 976F mutation is very low (5 %) [21] or not detected [22], while in India the presence of the F1076L mutation was not associated to CQR. In addition, in Madagascar, despite 5 % of clinical failures more than 90 % of Y976F mutant parasites were detected [33].

These polymorphisms also seem to be relatively uncommon in Latin America, where *P. vivax* CQR remains relatively infrequent [23]. In Brazil, different conclusions were drawn: either mutations in *pvmdr1* were reported in CQ-sensitive *P. vivax* parasites [24–26] or not detected in resistant *P. vivax* isolates [25, 26], as well as *P. vivax* CQR being associated with *pvmdr1* mutants only in patients with severe malaria [27].

In view of these different epidemiological data, the nucleotide polymorphisms (SNPs) of *pvmdr1* gene in successfully cured vivax malaria patients living in endemic (Amazonian) and non-endemic (Extra-Amazonian) Brazilian areas, were investigated in the present study.

**Methods**

**Study site, blood samples and DNA extraction**

Blood samples were collected between 2010 and 2014 in patients presenting vivax malaria (n = 49) at the Laboratório de Doenças Febris Agudas, INI-IPEC, Fiocruz, the Reference Laboratory for Malaria in the Extra-Amazon to the Brazilian Ministry of Health. The inclusion criterion was patients with uncomplicated vivax malaria. After obtaining informed consent, venous blood collection was performed according to protocols previously approved by the Ethical Research Committees of Fiocruz (32839013.6.00005248). Genomic DNA was extracted from 1 mL whole blood using QIAamp midi columns, as described by the manufacturer (Qiagen). *Plasmodium vivax* samples were diagnosed by microscopic examination and by polymerase chain reaction (PCR) [28]. All patients were treated with CQ plus primaquine (PQ) and followed up for 42 days and no treatment failure was detected during this period.

**PCR and electrophoresis**

The *pvmdr1* gene was amplified by PCR using gene-specific primers. The PCR was performed as described elsewhere [16, 29] to amplify a partial DNA sequence containing three SNPs for *pvmdr1* gene including: T958M, Y976F and F1076L.
## DNA sequencing and SNP polymorphisms detection

After purification using the Wizard SV Gel and PCR Clean-Up System (Promega), the amplified fragments were sequenced using Big Dye® Terminator Cycle Sequencing Ready Reaction version 3.1 (Applied Biosystems) and ABI PRISM DNA Analyzer 3730 (Applied Biosystems) [30] at the Genomic Platform/PDTIS/Fiocruz. The direct DNA sequencing from PCR products was compared with the reference wild type Sal I GenBank accession nº AY571984 [24, 25]. Forward and reverse sequences were analysed using the free software Bioedit Sequence Alignment Editor version 7.2.5. Statistical significance of differences of *pvmdr1* genotypes frequencies among Brazilian localities was assessed using Fisher's tests.

## Results

The *pvmdr1* gene was successfully amplified and DNA sequenced in 49 isolates from the Amazon Region (Acre, Amazonas, Pará, and Rondonia) and the Extra-Amazonian State of Rio de Janeiro.

Globally, 34 (69 %) showed non-synonymous (958M, 976F and 1076L) mutations. 958M mutant alleles were the more frequent (25/34; 73 %) while 976F (5/34; 15 %) and 1076L (10/34; 12 %) were detected at lower frequencies (Table 1). Single mutation was observed in 24 isolates (70.5 %, 24/34), while double mutations were recorded in ten (29.5 %, 10/34) *P. vivax* samples. In the

isolates presenting single mutant genotype, the MYF profile was predominant (19/55 %) contrasting with the FF, which was found in only five isolates (Table 2).

The *pvmdr1* wild-type allele was prevalent in Pará (54 %) followed by Acre (40 %), Amazonas (33 %), and Rondonia (24 %) states without statistically significant difference in proportion (p > 0.05). Single mutants were observed only in isolates from the Brazilian Amazon: the MFY allele was prevalent in Rondonia (77 %), followed by Amazonas (62 %) and Acre (67 %) (p > 0.05), although in Pará the FF single mutant was more frequent (66 %) than the MYF (p > 0.05). However, when double mutants were investigated, samples presenting FL (12 %) and MYL (20 %) in both Amazonian and Extra Amazonian States, were identified. Irrespective to the Brazilian State FL double mutant was the less frequent (Table 2) (p > 0.05). Interestingly, all isolates from the Extra Amazon (Rio de Janeiro State) showed double mutant genotype (MYL) contrasting with those from the Amazon Basin (6 %) (p = 0.01), where most of the isolates came from.

## Discussion

CQ and PQ remain the drugs of choice to treat vivax malaria, but recent studies have reported *P. vivax* cases of resistance to CQ in different regions of the world [9, 31], including Brazil [11–13]. Therefore, monitoring the efficacy of CQ in the treatment of vivax malaria is essential for early warning systems to promote drug policies.

To circumvent the limitations of in vivo and in vitro studies and to assess chemo-resistance, identification of mutations in target genes has been proposed, such as those in the *pvmdr1* gene at codons 976 and 1076, as well as the increased expression of *pvcrt* transcripts [12, 32]. Similar to previous studies performed with samples from western Brazilian Amazon [24, 25], in this work the T958M mutant was found to be the more frequent in the Brazilian Amazon and even in isolates from the Extra Amazonian regions. Additionally, in Madagascar [33], Nepal [21] and Thailand [34], most of the samples

<table><caption>**Table 1 Frequency of 958M, 976F and 1076L mutants in *pvmdr1* gene among 49 Brazilian *P. vivax* isolates**</caption><thead><tr><th>SNPs</th><th>Number of isolates (%)</th></tr></thead><tbody><tr><td>No mutation</td><td>15 (31)</td></tr><tr><td>958M</td><td>25 (51)</td></tr><tr><td>976F</td><td>5 (10)</td></tr><tr><td>1076L</td><td>4 (8)</td></tr></tbody></table>

*SNPs single nucleotide polymorphisms*

<table><caption>**Table 2 Proportion of the 4 alleles observed among 49 Brazilian *P. vivax* isolates, according to the sampling location**</caption><thead><tr><th rowspan="2">Genotypes</th><th rowspan="2">Pv isolates<br>N (%)</th><th colspan="5">Localities</th></tr><tr><th>Rondônia<br>(n = 17)</th><th>Pará<br>(n = 11)</th><th>Amazonas<br>(n = 8)</th><th>Acre<br>(n = 5)</th><th>Rio de Janeiro<br>(n = 4)</th></tr></thead><tbody><tr><td>Wt Sal1 type</td><td>15 (31)</td><td>4</td><td>5</td><td>4</td><td>2</td><td>0</td></tr><tr><td>Single FF</td><td>5 (15)</td><td>1</td><td>4</td><td>0</td><td>0</td><td>0</td></tr><tr><td>Double FL</td><td>4 (12)</td><td>2</td><td>0</td><td>2</td><td>0</td><td>0</td></tr><tr><td>Single MYF</td><td>19 (55)</td><td>10</td><td>2</td><td>5</td><td>2</td><td>0</td></tr><tr><td>Double MYL</td><td>6 (18)</td><td>0</td><td>0</td><td>1</td><td>1</td><td>4</td></tr><tr><td></td><td></td><td>13 (76 %)</td><td>6 (54 %)</td><td>8 (67 %)</td><td>3 (60 %)</td><td>4 (100 %)</td></tr></tbody></table>

*Pv, Plasmodium vivax*
presented mutations at 958 position, although all isolates have been obtained from individuals with successful response to CQ therapy. No later than November 2015, Schousbe and colleagues [35] reported a high prevalence of 958M (97.6 %) among *P. vivax* samples from six different geographical sites, suggesting that this allelic variant is most likely not associated with CQR and could be an allele characteristic of Asia and Africa isolates. The present data reinforce the lack of association of 958M with CQR, but are not in agreement with Asian and African geographical characteristic of this allele, since this allele was present in 51 % of the Brazilian (South American) samples.

Previous studies seemed to indicate that both SNP and amplification of *pvmdr1* are associated with variation in in vitro CQ susceptibility of *P. vivax* [17, 32]. It has been shown that the geometric mean of the CQ inhibitory concentration 50 % (IC50) was significantly higher in isolates carrying the Y976F mutation when compared to wild-type isolates in samples from Indonesia and Thailand [17]. However, the clear association between the clinical outcome following a three-day CQ treatment and non-synonymous mutations in this gene has never been demonstrated elsewhere. In fact, the single 976F mutant was not very common worldwide (7.4 %) [22], and the FF double mutant genotype was detected only in endemic regions of three countries: Brazil [36, 37], Honduras [38] and Papua New Guinea [39]. In the samples herein analysed, no significant difference was observed between the presence of double 976F/1076L mutant (12 %) and single 976F mutant (15 %) and no single 1076L mutant was noted. These findings suggest that polymorphisms at codons 976 and 1076 may not be strong indicators of CQ resistance since all *P. vivax* isolates were obtained from patients with good response to CQ therapy. In addition, 976F and 1076L mutants were also detected in *P. vivax* isolates in several countries in Africa and in South America from patients with no history of CQ recrudescence [23]. Probably, these mutations might have been introduced in these countries from Asia where these mutations are prevalent [23]. Interestingly, the 976F mutation in *P. vivax* isolates from Extra-Amazonian were not detected in areas where autochthonous malaria cases from Brazilian Atlantic Forest can occur. Thus, it seems that 976F mutations are more associated to geographical characteristics than to CQR.

Concerning codon 958, only samples from the Amazon Basin showed the MYF single mutant genotype, and double MYL mutants were observed in Amazonas and Acre State isolates. On the other hand, all isolates from the Extra Amazon State of Rio de Janeiro had the double mutant 958+1076 (MYL) genotype and these samples were wild type for codon 976. Once again, the heterogeneity in these *P. vivax* populations could reflect the

genetic diversity rather than an association with CQR in endemic areas with different endemic profiles [6].

Considering that *pvmdr1* mutations should not be expected in CQ-sensitive parasites and that PQ efficacy is highly dependent on concurrent administration of a blood schizontocidal agent [40] and thus PQ could not circumvent CQR, the present findings seem to indicate that the *pvmdr1* gene is not a reliable marker of CQR.

## Conclusion

This study provides new data concerning the molecular characterization of *P. vivax* isolates from Brazilian Atlantic Forest. The SNP diversity observed in samples from New World is similar to those from Asia and Africa, and probably reflects a capacity for great functional variation, as already suggested [41]. Very little is known about the molecular mechanisms underlying drug resistance in *P. vivax* and most *loci* that have been suggested to be responsible for *P. vivax* CQR derived from orthologue *P. falciparum* drug CQR genes. Further investigations are needed to define a reliable molecular marker for monitoring CQR in the Brazilian *P. vivax* population.

## Authors' contributions

MFFC carried out the study and the manuscript. LRG performed and analysis DNA sequencing and statistical analysis and drafted the manuscript. DM and CTDR participated in the discussions and reviewed the final manuscript. NKAO, SRFL and AL performed DNA extraction and PCRs. APC and PB recruited the patients. All authors read and approved the final manuscript.

## Author details

## Acknowledgements

CTDR and MFFC are recipients of a Research Productivity Fellowship from the National Brazilian Council for Scientific and Technological Development (CNPq) and from the Foundation for Research Support in the State of Rio de Janeiro (Faperj) as *Cientistas do Nosso Estado*. LRG receives a doctoral fellowship from CAPES, Brazilian Ministry of Education. The work was supported by the POM (Fiocruz), the PNCM, Secretary for Health Surveillance, Brazilian Ministry of Health and Fiocruz-Pasteur network. Sponsors had no role in the collection, analysis and interpretation of data, in the writing of the manuscript and in the decision to submit the manuscript for publication.

## Competing interests

The authors declare that they have no competing interests.

Received: 29 October 2015 Accepted: 3 February 2016

Published online: 18 February 2016

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