Data and study characteristics
The literature search generated 466 results in PubMed, 354 in Scopus, 271 in Web of Science (Clarivate Analytic) and 909 in Elsevier (Science Direct) databases (Fig. 1). After removing duplicates, 1202 articles were left for screening. Following screening of titles and abstracts, 295 studies were retained for more detailed evaluation. The most common reason for exclusion was the unavailability of data for analysis. Other reasons for exclusion including experimental studies, cohort studies, and reviews. As a result, 46 articles were selected in the study for full data extraction [5, 7, 8, 9, 23, 24, 25, 27, 28, 32, 33, 34, 35, 36, 37, 38, 39, 40, 41, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55, 56, 57, 58, 59, 60, 61, 62, 63, 64, 65, 66, 67, 68].
Description of included studies
Of the 46 included studies, six studies (13%) were published from 1988 to 1999, followed by 11 studies (24%) from 2000 to 2010 and 29 studies (63%) from 2011 to June 2019 (Table 1). The majority of studies were conducted in Malaysia Borneo (31/46; 67.4%), followed by Peninsular Malaysia (13/46; 28.3%) and in both areas (2/46; 4.3%). In term of sampling strategy, 33 studies derived from hospital data, 12 studies from population data and only one study from the combination of both hospital and population data.
Table 1 Summary of main features of included articles.
No
|
References
|
Sample size (N)
|
Period of sample collection1
|
Study design
|
Study area2
|
Prevalence by microscopy, n (%)
|
Pf, Pv, Pm, Po by microscopy, n (%)
|
Pk by microscopy, n (%)
|
Mixed infection by microscopy, n (%)
|
Prevalence by PCR, n (%)
|
Pf, Pv, Pm, Po by PCR, n (%)
|
Pk by PCR, n (%)
|
Mixed infection by PCR, n (%)
|
1
|
Jiram AI et al. 2019 [24]
|
1995
|
2013-2014
|
Cross-sectional
|
Borneo
|
0 (0)
|
0 (0)
|
0 (0)
|
0 (0)
|
145 (7.3)
|
116 (80)
|
9 (6.2)
|
20 (13.8)
|
2
|
Cooper DJ et al. 20193 [5]
|
3867
|
2015-2017
|
Hospital
|
Borneo
|
3788 (98)
|
264 (7)
|
3524 (93)
|
0 (0)
|
3580 (99.5)
|
283 (7.9)
|
3262 (91.1)
|
|
3
|
Grigg MJ et al. 2018 [32]
|
852
|
2012-2016
|
Hospital
|
Borneo
|
846 (99.3)
|
81 (9.6)
|
|
7 (0.8)
|
|
|
|
|
4
|
Grigg MJ et al. 20183 [33]
|
872
|
2012-2016
|
Hospital
|
Borneo
|
854 (97.9)
|
309 (36.2)
|
529 (61.9)
|
|
789 (97.3)
|
300 (38)
|
482 (61.1)
|
6 (0.8)
|
5
|
Jeffree SM et al. 2018 [34]
|
470
|
2012
|
Cross-sectional
|
Borneo
|
11 (2.3)
|
11 (100)
|
0 (0)
|
0 (0)
|
|
0 (0)
|
|
|
6
|
Liew JWK et al. 2018 [35]
|
3757
|
2016-2017
|
Cross-sectional
|
Peninsular
|
164 (4.4)
|
164 (100)
|
0 (0)
|
0 (0)
|
43 (26.5)
|
43 (100)
|
|
|
7
|
Siner A et al. 2017 [25]
|
3002
|
2014-2015
|
Cross-sectional
|
Borneo
|
5 (0.2)
|
0 (0)
|
5 (100)
|
0 (0)
|
9 (0.3)
|
1 (11.1)
|
7 (77.8)
|
|
8
|
Grigg MJ et al. 20173 [36]
|
414
|
2012-2015
|
Cross-sectional
|
Borneo
|
414 (100)
|
|
|
|
412 (99.5)
|
90 (21.8)
|
268 (65)
|
2 (0.5)
|
9
|
Mohd Abdul Razak MR et al. 20163 [37]
|
4257
|
2008-2009, 2011, 2014
|
Cross-sectional
|
Borneo
|
112 (2.6)
|
60 (53.6)
|
|
|
112 (2.6)
|
|
|
|
10
|
Britton S et al. 20163 [38]
|
261
|
2012
|
Hospital
|
Borneo
|
149 (57.1)
|
|
|
|
149 (57.1)
|
88 (59.1)
|
56 (37.6)
|
1 (0.7)
|
11
|
Stanis CS et al. 20163 [28]
|
129
|
2012-2013
|
Hospital
|
Borneo
|
109 (84.5)
|
101 (92.7)
|
6 (5.5)
|
2 (1.8)
|
103 (79.8)
|
35 (34)
|
68 (66)
|
|
12
|
Fornace KM et al. 20163 [39]
|
2006
|
2008-2012
|
Hospital
|
Borneo
|
1847 (100)
|
1847 (1847)
|
0 (0)
|
0 (0)
|
346 (100)
|
33 (9.5)
|
313 (90.5)
|
|
13
|
Jiram AI et al. 2016 [40]
|
306
|
|
Cross-sectional
|
Peninsular
|
|
|
|
|
113 (36.9)
|
59 (52.2)
|
23 (20.4)
|
31 (52.5)
|
14
|
Othman N et al. 20153 [41]
|
94
|
2007-2010
|
Hospital
|
Borneo
|
94 (100)
|
93 (98.9)
|
0 (0)
|
1 (1.1)
|
94 (100)
|
92 (98.9)
|
|
2 (2.1)
|
15
|
Fornace KM et al. 2015 [23]
|
1147
|
2012-2014
|
Hospital
|
Borneo
|
1 (0.1)
|
|
|
|
206 (18)
|
|
20 (9.7)
|
|
16
|
Lee PC et al. 2015 [27]
|
207
|
2012-2013
|
Hospital
|
Borneo
|
|
|
|
|
207 (100)
|
53 (25.7)
|
152 (73.4)
|
|
17
|
Chua KH et al. 2015 [42]
|
229
|
2008-2010
|
Hospital
|
Borneo
|
215 (93.9)
|
214 (99.5)
|
0 (0)
|
1 (0.5)
|
226 (98.7)
|
185 (89.4)
|
36 (15.9)
|
2 (0.9)
|
18
|
Barber BE et al. 2015 [43]
|
774
|
2012-2013
|
Hospital
|
Borneo
|
774 (100)
|
757 (97.8)
|
0 (0)
|
17 (2.2)
|
|
|
|
|
19
|
Vythilingam I et al. 2014 [44]
|
4353
|
2009-2013
|
Hospital
|
Peninsular
|
1284 (29.5)
|
1262 (98.3)
|
0 (0)
|
22 (1.7)
|
|
|
|
|
20
|
Foster D et al. 2014 [45]
|
84
|
2010-2011
|
Hospital
|
Borneo
|
|
|
|
|
84 (100)
|
15 (17.9)
|
69 (82.1)
|
|
21
|
Yusof R et al. 20143 [9]
|
457
|
|
Hospital
|
Borneo and Peninsular
|
457 (100)
|
274 (60)
|
181 (39.6)
|
2 (0.4)
|
453 (99.1)
|
185 (40.8)
|
256 (56.5)
|
12 (2.6)
|
22
|
Braima KA et al. 2013 [46]
|
1623
|
2006-2012
|
Hospital
|
Peninsular
|
1623 (100)
|
1522 (93.8)
|
75 (4.6)
|
26 (1.6)
|
|
|
|
|
23
|
Goh XT et al. 20133 [7]
|
189
|
2008-2011
|
Hospital
|
Borneo
|
189 (100)
|
186 (98.4)
|
0 (0)
|
3 (1.6)
|
178 (94.2)
|
134 (75.3)
|
42 (24)
|
2 (1.1)
|
24
|
Barber BE et al. 20133 [47]
|
387
|
2010-2011
|
Hospital
|
Borneo
|
387 (100)
|
221 (57.1)
|
150 (38.8)
|
16 (4.1)
|
295 (100)
|
165 (55.9)
|
130 (44.1)
|
|
25
|
Barber BE et al. 20123 [48]
|
18993
|
2009-2011
|
Hospital
|
Borneo
|
653 (3.4)
|
558 (85.5)
|
0 (0)
|
95 (14.5)
|
475 (97.9)
|
58 (12.2)
|
345 (72.3)
|
48 (10.1)
|
26
|
Khin D et al. 20113 [49]
|
445
|
2009
|
Hospital
|
Borneo
|
445 (100)
|
318 (71.5)
|
0 (0)
|
25 (5.6)
|
343 (100)
|
|
256 (74.6)
|
87 (25.4)
|
27
|
Norahmad NA et al. 2011 [50]
|
619
|
2008-2009
|
Hospital
|
Borneo
|
58 (9.4)
|
31 (53.4)
|
|
|
|
|
|
|
28
|
William T et al. 20113 [51]
|
78
|
2007-2009
|
Hospital
|
Borneo
|
78 (100)
|
0 (0)
|
0 (0)
|
0 (0)
|
63 (100)
|
2 (3.2)
|
56 (88.9)
|
5 (7.9)
|
29
|
Barber BE et al. 20113 [52]
|
220
|
2009
|
Hospital
|
Borneo
|
220 (100)
|
184 (83.6)
|
0 (0)
|
36 (16.4)
|
155 (96.3)
|
9 (5.8)
|
127 (81.9)
|
12 (7.7)
|
30
|
Daneshvar C et al. 2009 [53]
|
188
|
2006-2008
|
Hospital
|
Borneo
|
188 (100)
|
60 (31.9)
|
121 (64.4)
|
7 (3.7)
|
|
|
|
|
31
|
Lee KS et al. 20093 [54]
|
47
|
1996
|
Hospital
|
Borneo
|
47 (100)
|
47 (100)
|
0 (0)
|
0 (0)
|
36 (76.6)
|
1 (2.8)
|
29 (80.6)
|
6 (16.7)
|
32
|
Gurpreet K 2009 [55]
|
520
|
2000-2001
|
Cross-sectional
|
Peninsular
|
126 (24.2)
|
126 (100)
|
0 (0)
|
0 (0)
|
|
|
|
|
33
|
Vythilingam I et al. 20083 [8]
|
111
|
2005-2008
|
Hospital
|
Borneo and Peninsular
|
111 (100)
|
108 (97.3)
|
0 (0)
|
3 (2.7)
|
111 (100)
|
33 (29.7)
|
65 (58.6)
|
13 (11.7)
|
34
|
Cox-Singh J et al. 20083 [56]
|
960
|
2001-2006
|
Hospital
|
Borneo
|
960 (100)
|
958 (99.8)
|
0 (0)
|
2 (0.2)
|
960 (100)
|
664 (69.2)
|
243 (25.3)
|
53 (5.5)
|
35
|
Nimir AR et al. 2006 [57]
|
382
|
1998-2003
|
Hospital
|
Peninsular
|
382 (100)
|
347 (90.8)
|
0 (0)
|
35 (9.2)
|
|
|
|
|
36
|
Jamaiah I et al. 2006 [58]
|
94
|
1999-2004
|
Hospital
|
Peninsular
|
94 (100)
|
89 (94.7)
|
0 (0)
|
5 (5.3)
|
|
|
|
|
37
|
Jamaiah I et al. 2005 [59]
|
86
|
1994-2003
|
Hospital
|
Peninsular
|
86 (100)
|
76 (88.4)
|
0 (0)
|
8 (9.3)
|
|
|
|
|
38
|
Singh B et al. 20043 [60]
|
208
|
2000-2002
|
Hospital
|
Borneo
|
208 (100)
|
208 (100)
|
0 (0)
|
0 (0)
|
208 (100)
|
82 (39.4)
|
106 (51)
|
20 (9.6)
|
39
|
Koh KH et al. 2004 [61]
|
31
|
1996-2001
|
Hospital
|
Borneo
|
31 (100)
|
30 (96.8)
|
0 (0)
|
1 (3.2)
|
|
|
|
|
40
|
Norhayati M et al. 2001 [62]
|
310
|
|
Cross-sectional
|
Peninsular
|
34 (11)
|
34 (100)
|
0 (0)
|
0 (0)
|
|
|
|
|
41
|
Singh B et al. 1999 [63]
|
129
|
|
Cross-sectional
|
Borneo
|
36 (27.9)
|
31 (86.1)
|
0 (0)
|
5 (13.9)
|
43 (33.3)
|
32 (74.4)
|
0 (0)
|
11 (25.6)
|
42
|
Jamaiah I et al. 1998 [64]
|
134
|
1983-1992
|
Hospital
|
Peninsular
|
134 (100)
|
123 (91.8)
|
0 (0)
|
11 (8.2)
|
|
|
|
|
43
|
Singh B et al. 1996 [65]
|
166
|
|
Hospital and Cross-sectional
|
Borneo
|
68 (41)
|
62 (91.2)
|
0 (0)
|
6 (8.8)
|
73 (44)
|
65 (89)
|
0 (0)
|
8 (11)
|
44
|
Sidhu PS et al. 1991 [66]
|
64
|
1984-1988
|
Hospital
|
Peninsular
|
64 (100)
|
62 (96.9)
|
0 (0)
|
2 (3.1)
|
|
|
|
|
45
|
Gordon DM et al. 1991 [67]
|
268
|
|
Cross-sectional
|
Peninsular
|
60 (22.4)
|
50 (83.3)
|
0 (0)
|
10 (16.7)
|
|
|
|
|
46
|
Lee M et al. 1988 [68]
|
94
|
1986
|
Cross-sectional
|
Peninsular
|
45 (47.9)
|
23 (51.1)
|
0 (0)
|
22 (48.9)
|
|
|
|
|
1Total of six studies has no data on period of sample collection. Some studies do not explicitly stratify the number of cases in each year.
2 Borneo including the states of Sabah and Sarawak in East Malaysia.
3Studies with PCR diagnosis derived from a subset of microscopy positive data.
Pf=P. falciparum; Pv=P. vivax; Pm=P. malariae; Po=P. ovale and Pk=P. knowlesi
In term of malaria diagnosis method, 28 studies utilized both microscopy and PCR, but in 18 of them, the samples tested for PCR were chosen from the microscopy positive cases for malaria species confirmation. Of those 18 studies tested for PCR, ten studies [7, 8, 9, 36, 37, 38, 41, 54, 56, 60] used all the microscopy positive cases, six studies [5, 33, 47, 49, 51, 52] used more than 70% of the cases, one study [48] used 2.5% randomly selected cases, and one study [39] used 19% of microscopy positive cases for either P. malariae or P. knowlesi. Furthermore, of the 28 studies, ten studies [12, 24, 25, 28, 32, 35, 42, 53, 63, 65] conducted PCR on all samples regardless of the microscopy results in order to trace the sub-microscopic infections. In addition, 18 studies utilized only one method of detection for malaria: 15 [34, 43, 44, 46, 50, 55, 57, 58, 59, 61, 62, 64, 66, 67, 68] by microscopy and three [27, 40, 45] by PCR.
Overall, the median sample sizes were 308 cases (range 31-18993) for microscopy and 261 (range 47-4257) for PCR. Most microscopy diagnosis used Giemsa-stained thick and thin smears (n=35), while the remaining studies (n=8) used only thick smear. In studies using PCR methods (n=31), the majority used conventional nested PCR (n=22), followed by three studies used multiplex PCR and two studies used real-time PCR. Other studies (n=4) reported combination of different PCR methods; conventional/multiplex/real-time PCR, loop-mediated isothermal amplification (LAMP) assays [38], conventional/multiplex PCR assays [28], conventional/real-time PCR assays [12], and multiplex/real-time PCR assays [27].
Parasite and incidence rates by year of sampling
The parasite rate and average incidence rate by year of sampling are shown in Fig. 2. In total, seven cross-sectional [24, 25, 35, 36, 40, 63, 65] and 21 hospital-based studies (5, 7, 8, 9, 23, 27, 28, 33, 38, 39, 41, 42, 45, 47, 48, 49, 51, 52, 54, 56, 60) with available PCR data for malaria species (1996 to 2017) were used to calculate trends in parasite rate and incidence rate, respectively. Generally, over the 22-year period, species predominance shifted from P. falciparum before 2000 to P. knowlesi from 2015 onward. Plasmodium knowlesi parasite rate rose drastically from 0.003 in 2014 to 0.399 in 2015, but declined to 0.187 and 0.131 in 2016 to 2017, respectively. Similar trend for incidence rate was also observed across the 22 years. Plasmodium falciparum incidence decreased from 0.836 per 100,000 in 2006 to 0.016 per 100,000 in 2017, and P. vivax from 1.679 per 100,000 in 2006 to 0.080 per 100,000 in 2017. In contrast, P. knowlesi incidence rate rose steadily throughout the years from 0.029 per 100,000 in 1996 to 5.909 per 100,000 in 2017.
Sensitivity and specificity of detection methods
The performance of microscopy and PCR in detecting Plasmodium spp. are shown in Fig. 3. In total, 21 studies were included; 18 studies were undertaken in Malaysia Borneo [5, 7, 24, 25, 28, 33, 39, 41, 42, 47, 48, 49, 52, 54, 56, 60, 63, 65], one study was in Peninsular Malaysia [35] and two studies were in both Peninsular Malaysia and Malaysia Borneo [8, 9]. Overall, the summary estimate of sensitivity by microscopy was highest for P. knowlesi (35% [95% CI: 34 – 36]), followed by P. malariae (25% [95% CI: 24 – 26]) and P. vivax (14% [95% CI: 14 – 15]), and lowest for P. falciparum (11% [95% CI: 10 – 11]). Nevertheless, the summary estimate of specificity by microscopy was similar in all species ranged 40% - 43%.
Similar to microscopy, the summary estimate of sensitivity by PCR was highest for P. knowlesi with 56% (95% CI: 55 – 57). Whereas, the summary estimate of sensitivity by PCR for P. vivax, P. falciparum and P. malariae were 14% (95% CI: 13 – 15), 11% (95% CI: 10 – 11) and 1.6% (95% CI: 1.4 – 1.9), respectively. On the other hand, the specificities of summary estimate for species-specific were less than 35% with P. knowlesi, P. vivax, P. falciparum and P. malariae were 34.5% (95% CI: 34 – 35), 34% (95% CI: 33 – 35), 16.5% (95% CI: 16 – 17) and 2.3% (95% CI: 2 – 3), respectively.