Development and annotation of species-specific microsatellite markers from transcriptome sequencing for a higher group termite, Globitermes sulphureus Haviland (Blattodea: Termitidae)

Khizam, Nur Aizatul Nathasha; Majid, Abdul Hafiz Ab

doi:10.1016/j.mgene.2019.100568

Cited by 3 publications

(6 citation statements)

References 45 publications

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“…Each termite worker was genotyped based on speciesspecific microsatellite loci obtained from Khizam and Ab Majid (2019) (GS 1, GS 3, GS 4, GS 10, GS 15, GS 27, and GS 29) (Table 2). We deposited all sequences in the National Centre for Biotechnology Information (NCBI) and Sequence Read Archive (SRA) databases under accession number SRP132022 associated with BioProject PRJNA432461.…”

Section: Microsatellite Genotypingmentioning

confidence: 99%

“…Molecular data such as microsatellite marker analysis enables researchers to infer the breeding system of the species and its dispersal behavior responsible for producing the pattern structure and characterize the population's subdivisions (Thompson et al, 2007;Fougeyrollas et al, 2018). Khizam and Ab Majid (2019) developed highly polymorphic species-specific microsatellite markers for G. sulphureus to investigate the breeding pattern and population genetic structure. Microsatellite markers are suitable instruments for understanding a colony's breeding structure in social insects (Ross, 2001).…”

Section: Introductionmentioning

confidence: 99%

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Population Genetic Structure and Breeding Pattern of Higher Group Termite Globitermes sulphureus (Haviland) (Blattodea:Termitidae)

Khizam

Majid

2021

Sociobiology

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The subterranean termite Globitermes sulphureus (Blattodea: Termitidae) can be found in tropical regions. We chose seven novel species-specific microsatellite markers to infer the breeding pattern of G. sulphureus based on its colony and population genetic structure in eight selected populations (natural-n = 4 and metropolitan-n = 4) in Kedah and Penang, Malaysia. A strong correlation with their geographical location is shown by the acquired genetic gap for all studied populations from this study. The breeding pattern of family structure and comparisons of estimated F-statistics among G. sulphureus workers suggests 60% of all colonies are mixed families, whereas the remaining are simple families. Average relatedness values within simple and mixed family colonies are similar (r = 0.121). Positive fixation index FST values (FST = 0.086) indicate all eight populations (>500 m apart) have a significantly moderate genetic differentiation and low levels of inbreeding based on the low overall inbreeding coefficient FIT value of 0.391. Furthermore, four populations; Palapes USM (PU), Tmn Astana (TA), Kg Teluk (KT), and Penang National Park (NP), deviate from Hardy–Weinberg equilibrium (HWE, all p = 0.000) and five studied polymorphic loci (GS1, GS10, GS15, GS27 and GS29) are possibly under selection. The findings also reveal signs of a bottleneck effect in two populations: Tikam Batu (TB) and Penang National Park (NP), indicating genetic drift.

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Section: Microsatellite Genotypingmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Population Genetic Structure and Breeding Pattern of Higher Group Termite Globitermes sulphureus (Haviland) (Blattodea:Termitidae)

Khizam

Majid

2021

Sociobiology

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“…Most of the currently available data for G. sulphureus distribution in Malaysia is based on samples gathered from home infestations, disturbed forest, forest reserve, and rural areas (Ab Majid & Ahmad, 2009;Aiman Hanis et al, 2014;Khizam & Ab Majid, 2019;Lee et al, 2004). However, its invasion biology, geographical distribution, and the pattern of introducing this species are still less understood.…”

Section: Introductionmentioning

confidence: 99%

“…Its mound is easily identified based on a dome shape and a dark brown color (Ahmad, 1965). G. sulphureus is easily identified since the soldiers possess a bright-yellow colored body (Ab Majid & Ahmad, 2011;Hussin & Ab Majid, 2017;Hussin et al, 2018;Khizam & Ab Majid, 2019). The goal of this study is to determine the genetic diversity and phylogenetic relationship among local populations of G. sulphureus in Universiti Sains Malaysia (USM) main campus, Penang by using partial sequences of the mitochondrial COII gene.…”

Section: Introductionmentioning

confidence: 99%

Genetic diversity and phylogenetic relationship of higher termite Globitermes sulphureus (Haviland)(Blattodea:Termitidae)

Hussin¹,

Majid²

2021

Sociobiology

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The subterranean higher termite Globitermes sulphureus (Blattodea: Termitidae), is a peridomestic forager and regarded as a significant pest in Southeast Asia. In this study, the populations of G. sulphureus from the USM main campus area were investigated based on partial sequences of the mitochondrial COII gene. The genetic diversity was determined using DnaSP v5 software while the phylogenetic relationship was defined using Neighbor-joining (NJ) and maximum likelihood (ML) methods using Molecular Evolutionary Genetics Analysis (MEGA 7) software. A total of 2 haplotypes were detected among the 5 sample sequences that differed by two variable sites. In addition, both phylogenetic trees gave similar topology and supporting the results from haplotype diversity. Based on the haplotype diversity and molecular phylogeny, it is proposed that geographic isolation and lack of human activities have contributed to the neutral genetic diversity of G. sulphureus.

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“…We therefore, decided to assemble its transcriptome. De novo transcriptomics (assembling transcriptomes without a reference genome) gives access to large numbers of genes at relatively low cost, with potential applications for SNP discovery and molecular markers (Gayral et al., 2013; Khizam and Ab Majid, 2019; Levy and Myers, 2016). De novo transcriptome has also been applied in other insect studies such as beetle (Sayadi et al., 2016), ants (Morandin et al., 2018), and cockroach (Kim et al., 2016).…”

Section: Introductionmentioning

confidence: 99%

The de novo transcriptome of workers head of the higher group termite Globitermes sulphureus Haviland (Blattodea: Termitidae)

Hussin

Najimudin

Majid

2019

Heliyon

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The subterranean termite Globitermus sulphureus is an important Southeast Asian pest with limited genomic resources that causes damages to agriculture crops and building structures. Therefore, the main goal of this study was to survey the G. sulphureus transcriptome composition. Here, we performed de novo transcriptome for G. sulphureus workers’ heads using Illumina HiSeq paired-end sequencing technology. A total of 88, 639, 408 clean reads were collected and assembled into 243, 057 transcripts and 193, 344 putative genes. The transcripts were annotated with the Trinotate pipeline. In total, 27, 061 transcripts were successfully annotated using BLASTX against the SwissProt database and 17, 816 genes were assigned to 47, 598 GO terms. We classified 14, 223 transcripts into COG classification, resulting in 25 groups of functional annotations. Next, a total of 12, 194 genes were matched in the KEGG pathway and 392 metabolic pathways were predicted based on the annotation. Moreover, we detected two endogenous cellulases in the sequences. The RT-qPCR analysis showed that there were significant differences in the expression levels of two genes β-glucosidase and endo-β-1,4-glucanase between worker and soldier heads of G. sulphureus. This is the first study to characterize the complete head transcriptome of a higher termite G. sulphureus using a high-throughput sequencing. Our study may provide an overview and comprehensive molecular resource for comparative studies of the transcriptomics and genomics of termites.

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Development and annotation of species-specific microsatellite markers from transcriptome sequencing for a higher group termite, Globitermes sulphureus Haviland (Blattodea: Termitidae)

Cited by 3 publications

References 45 publications

Population Genetic Structure and Breeding Pattern of Higher Group Termite Globitermes sulphureus (Haviland) (Blattodea:Termitidae)

Population Genetic Structure and Breeding Pattern of Higher Group Termite Globitermes sulphureus (Haviland) (Blattodea:Termitidae)

Genetic diversity and phylogenetic relationship of higher termite Globitermes sulphureus (Haviland)(Blattodea:Termitidae)

The de novo transcriptome of workers head of the higher group termite Globitermes sulphureus Haviland (Blattodea: Termitidae)

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