Sequence Analysis of the Cytochrome C Oxidase Subunit I Gene of  Pseudagrion pilidorsum (Odonata: Coenagrionidae)

Tallei, Trina Ekawati; Koneri, Roni; Kolondam, Beivy J

doi:10.7454/mss.v21i1.7536

Cited by 8 publications

(7 citation statements)

References 32 publications

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“…Mitochondrial DNA (mtDNA) was extracted from the base of the coxa, which is connected to the abdomen, according to Tallei et al [ 12 ]. The mtDNA was prepared using The ZR Tissue and Insect DNA MiniPrep™ (Zymo Research) by following the instruction provided by the manufacturer.…”

Section: Methodsmentioning

confidence: 99%

Bacterial Composition, Community Structure, and Diversity in Apis nigrocincta Gut

Lombogia

Tulung

Posangi

et al. 2020

International Journal of Microbiology

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Understanding the honeybee gut bacteria is an essential aspect as honeybees are the primary pollinators of many crops. In this study, the honeybee-associated gut bacteria were investigated by targeting the V3-V4 region of 16S rRNA genes using the Illumina MiSeq. The adult worker was captured in an urban area in a dense settlement. In total, 83,018 reads were obtained, revealing six phyla from 749 bacterial operational taxonomic units (OTUs). The gut was dominated by Proteobacteria (58% of the total reads, including Enterobacteriaceae 28.2%, Erwinia 6.43%, and Klebsiella 4.90%), Firmicutes (29% of the total reads, including Lactococcus garvieae 13.45%, Lactobacillus spp. 8.19%, and Enterococcus spp. 4.47%), and Actinobacteria (8% of the total reads, including Bifidobacterium spp. 7.96%). Many of these bacteria belong to the group of lactic acid bacteria (LAB), which was claimed to be composed of beneficial bacteria involved in maintaining a healthy host. The honeybee was identified as Apis nigrocincta based on an identity BLAST search of its COI region. This study is the first report on the gut microbial community structure and composition of A. nigrocincta from Indonesia.

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Section: Methodsmentioning

confidence: 99%

Bacterial Composition, Community Structure, and Diversity in Apis nigrocincta Gut

Lombogia

Tulung

Posangi

et al. 2020

International Journal of Microbiology

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“…is COI gene has been widely used in evaluating inter-and intraspecific diversity in insects [14]. It is also used to complement traditional morphological-based identification to get more accurate species identification results [6]. Several studies of DNA barcoding in honey bees using the COI gene have been carried out by several researchers [5,[15][16][17][18].…”

Section: Discussionmentioning

confidence: 99%

“…e genomic DNA was cleaned with DNA Clean & Concentrator ™ -5 (DCC ™ -5) (Zymo Research) for the generation of high-quality DNA for PCR. e DNA barcode of COI region was amplified using Toyobo KOD FX Neo PCR Master Mix with primer pairs LCO1490 and HCO2198 [6]. e condition of PCR included 2 min of initial denaturation at 95°C followed by 35 cycles of denaturation at 98°C for 10 sec, annealing at 54°C for 30 sec, elongation at 68°C for 45 sec and additional extension for 5 min at 68°C.…”

Section: Sample Preparation Pcrmentioning

confidence: 99%

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Assessment of Genetic Variation in Apis nigrocincta (Hymenoptera: Apidae) in Sulawesi Revealed by Partial Mitochondrial Cytochrome Oxidase I Gene Sequences

et al. 2020

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Asian cavity-nesting honey bee Apis nigrocincta, a native bee species from Sulawesi and the Philippines, plays a vital role in pollinating flowering plants in local ecosystem and agriculture. In this study, we assessed the intraspecific genetic variation of A. nigrocincta using the sequence of cytochrome c oxidase subunit I (COI). Molecular phylogenetic analysis showed that there were three main clades in A. nigrocincta specimens from Sulawesi based on their respective locations (North, Central, and South Sulawesi). Genetic distance analysis using the Kimura 2-parameter (K2P) model showed that the intraspecific genetic distance in Sulawesi specimens ranged from 0.000 to 0.055. There are 26 nucleotide polymorphic sites within Sulawesi A. nigrocincta. The variation was dominated by transition T ↔ C. The molecular identification result was supported by morphological identification. The results of the two methods agree that the specimen under study was A. nigrocincta. The result of genetic distance calculation indicated that although the tested specimens were derived from remote locations, the genetic variation was still within the range of intraspecific variation.

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“…The small genetic difference between the same species suggests that they are closely related, hence they are presumably the same species (Tallei et al, 2017). Meanwhile, the genetic distance between the Algae genus was greater than between species.…”

Section: Phylogenetic Treementioning

confidence: 97%

Molecular Identification of Brown Algae Sargassum sp. from the Lombok Coastal Waters

et al. 2022

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Sargassum is a well-known genus of brown algae in Indonesia that has long been investigated due to its economic importance. To support its biological research, it is important to identify and classify the species studied. Morphological identification had greatly contributed to taxonomy, however, it cannot distinguish Sargassum species accurately due to its plasticity. The current study aims to identify Lombok Sargassum molecularly using an ITS2 DNA barcode. Fresh algae were collected from Ekas Bay (EB) and Aan Cape (AC) in Lombok. DNA was first purified, and then its gene product was amplified using ITS2 primers. DNA sequences were examined and traced using the Basic Local Alignment Search Tool (BLAST). DNA sequences were processed in MEGA-X to reconstruct the phylogenetic tree and estimate the genetic distance. Three species were identified based on the BLAST results: Sargassum cf granuliferum, Sargassum polycystum, and Sargassum oligocystum. The base length obtained ranged from 521 to 637 bp, with a similarity percentage of 99.25 to 100%. The phylogenetic tree exhibited each recognized Sargassum species was clustered with the same species from the gene bank. Interspecies genetic distance was 0,000-0,0039, while amongst Sargassum species it's 0,0136-0,2395. The genetic distance between Sargassum and Ulva adherens (outgroup) was >1. Sargassum species found in Lombok were closely related to other similar species in the GenBank.

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Sequence Analysis of the Cytochrome C Oxidase Subunit I Gene of Pseudagrion pilidorsum (Odonata: Coenagrionidae)

Cited by 8 publications

References 32 publications

Bacterial Composition, Community Structure, and Diversity in Apis nigrocincta Gut

Bacterial Composition, Community Structure, and Diversity in Apis nigrocincta Gut

Assessment of Genetic Variation in Apis nigrocincta (Hymenoptera: Apidae) in Sulawesi Revealed by Partial Mitochondrial Cytochrome Oxidase I Gene Sequences

Molecular Identification of Brown Algae Sargassum sp. from the Lombok Coastal Waters

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