I graduated from Biology with fish population genetics in the RUPP in 2014, then moved to work with insect collections at the same institution in 2015, and finally came to Japan in 2016 to continue my master in Agriculture in the UTokyo where I now belong to until April 2019. Learn more at phoura-y.com.
Bronze Featherback (Notopterus notopterus) plays a very important role in commercial fish values ... more Bronze Featherback (Notopterus notopterus) plays a very important role in commercial fish values for Cambodian but yet this species is become more threatened and concerned. As a part of conservation, population genetics of N. notopterus by using mitochondrial DNA (mtDNA) markers is widely studied. Among the mitochondrial DNA markers, 16S, COI, D-loop, ATPase, Cyt-b, and ND2 are commonly used. Previous studies of population genetics of other fish indicated that it is important to select an appropriate marker to study fish population. Previous experiments, Control Region (D-loop) and ND2 were separately applied for N. notopterus population, but marker selection has yet to do.
The main purpose of the study is to find a suitable marker among the six mitochondrial DNA markers 16S, COI, D-loop, ATPase, Cyt-b, and ND2 to study N. notopterus population in Cambodia. In order to complete the purpose, eight steps of (1) N. notopterus tissue (muscle and fin) collection, (2) DNA extraction, (3) PCR, (4) Gel electrophoresis, (5) DNA sequencing (6) BLAST, (7) Sequence alignment, and (8) Neighbor-joining tree building were conducted.
Results of PCR products with the primers used were acceptable, indicating that PCR of the six markers was successfully amplified. However, only D-loop was sequenced due to time constrains. There were four sequences of the D-loop received from sequencing. The four D-loop sequences were aligned and consisted of identical sites 77.7%, equal to 23.3% of variable sites. The variable site 23.3% (10 % <23.3 %< 75%) was suggested to be able to study fish population. According to neighbor-joining tree, the relationship among the N. notopterus samples with the D-loop was also probably not in one population. Based on above findings, D-loop is feasible for studying N. notopterus population in Cambodia in accordance with previous studies.
Bronze Featherback (Notopterus notopterus) plays a very important role in commercial fish values ... more Bronze Featherback (Notopterus notopterus) plays a very important role in commercial fish values for Cambodian but yet this species is become more threatened and concerned. As a part of conservation, population genetics of N. notopterus by using mitochondrial DNA (mtDNA) markers is widely studied. Among the mitochondrial DNA markers, 16S, COI, D-loop, ATPase, Cyt-b, and ND2 are commonly used. Previous studies of population genetics of other fish indicated that it is important to select an appropriate marker to study fish population. Previous experiments, Control Region (D-loop) and ND2 were separately applied for N. notopterus population, but marker selection has yet to do.
The main purpose of the study is to find a suitable marker among the six mitochondrial DNA markers 16S, COI, D-loop, ATPase, Cyt-b, and ND2 to study N. notopterus population in Cambodia. In order to complete the purpose, eight steps of (1) N. notopterus tissue (muscle and fin) collection, (2) DNA extraction, (3) PCR, (4) Gel electrophoresis, (5) DNA sequencing (6) BLAST, (7) Sequence alignment, and (8) Neighbor-joining tree building were conducted.
Results of PCR products with the primers used were acceptable, indicating that PCR of the six markers was successfully amplified. However, only D-loop was sequenced due to time constrains. There were four sequences of the D-loop received from sequencing. The four D-loop sequences were aligned and consisted of identical sites 77.7%, equal to 23.3% of variable sites. The variable site 23.3% (10 % <23.3 %< 75%) was suggested to be able to study fish population. According to neighbor-joining tree, the relationship among the N. notopterus samples with the D-loop was also probably not in one population. Based on above findings, D-loop is feasible for studying N. notopterus population in Cambodia in accordance with previous studies.
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Papers by Phoura YY
The main purpose of the study is to find a suitable marker among the six mitochondrial DNA markers 16S, COI, D-loop, ATPase, Cyt-b, and ND2 to study N. notopterus population in Cambodia. In order to complete the purpose, eight steps of (1) N. notopterus tissue (muscle and fin) collection, (2) DNA extraction, (3) PCR, (4) Gel electrophoresis, (5) DNA sequencing (6) BLAST, (7) Sequence alignment, and (8) Neighbor-joining tree building were conducted.
Results of PCR products with the primers used were acceptable, indicating that PCR of the six markers was successfully amplified. However, only D-loop was sequenced due to time constrains. There were four sequences of the D-loop received from sequencing. The four D-loop sequences were aligned and consisted of identical sites 77.7%, equal to 23.3% of variable sites. The variable site 23.3% (10 % <23.3 %< 75%) was suggested to be able to study fish population. According to neighbor-joining tree, the relationship among the N. notopterus samples with the D-loop was also probably not in one population. Based on above findings, D-loop is feasible for studying N. notopterus population in Cambodia in accordance with previous studies.
Key words: Notopterus notopterus, Population genetics, Genetic marker, mtDNA markers, 16S, COI, D-loop, ATPase, Cyt-b, ND2
The main purpose of the study is to find a suitable marker among the six mitochondrial DNA markers 16S, COI, D-loop, ATPase, Cyt-b, and ND2 to study N. notopterus population in Cambodia. In order to complete the purpose, eight steps of (1) N. notopterus tissue (muscle and fin) collection, (2) DNA extraction, (3) PCR, (4) Gel electrophoresis, (5) DNA sequencing (6) BLAST, (7) Sequence alignment, and (8) Neighbor-joining tree building were conducted.
Results of PCR products with the primers used were acceptable, indicating that PCR of the six markers was successfully amplified. However, only D-loop was sequenced due to time constrains. There were four sequences of the D-loop received from sequencing. The four D-loop sequences were aligned and consisted of identical sites 77.7%, equal to 23.3% of variable sites. The variable site 23.3% (10 % <23.3 %< 75%) was suggested to be able to study fish population. According to neighbor-joining tree, the relationship among the N. notopterus samples with the D-loop was also probably not in one population. Based on above findings, D-loop is feasible for studying N. notopterus population in Cambodia in accordance with previous studies.
Key words: Notopterus notopterus, Population genetics, Genetic marker, mtDNA markers, 16S, COI, D-loop, ATPase, Cyt-b, ND2