Abstract
| Original language | English |
|---|---|
| Title of host publication | VII ECOP - ISOP Joint Meeting |
| Pages | 246 |
| Publication status | Published - 2015 |
| Event | VII European Congress of Protistology - Sevilla Duration: 4 Sep 2015 → 9 Sep 2015 http://eukref.org/event/vii-european-congress-of-protistology/ |
Conference
| Conference | VII European Congress of Protistology |
|---|---|
| Country | Spain |
| City | Sevilla |
| Period | 4/09/15 → 9/09/15 |
| Internet address |
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Amoebozoa-specific genes as potential DNA barcodes to study environmental diversity of amoebae. / Bondarenko, N.; Bondarenko, A.; Smirnov, A.
VII ECOP - ISOP Joint Meeting. 2015. p. 246.Research output
TY - GEN
T1 - Amoebozoa-specific genes as potential DNA barcodes to study environmental diversity of amoebae
AU - Bondarenko, N.
AU - Bondarenko, A.
AU - Smirnov, A.
PY - 2015
Y1 - 2015
N2 - Implication of metagenomic approaches show that the amount of unexplored diversity in the environmental appears to be enormous, providing a background to the term “the dark matter of life”. Amoebozoa are among the groups that are numerous in all kinds of habitats, but rarely represent more than several percent of the total number of sequences when routine DNA barcodes (SSU gene, Cox I gene) are used to study environmental diversity. To explore cryptic diversity of Amoebozoa in the natural habitats we attempted to find Amoebozoa-specific genes and gene families for future application as a DNA barcodes in environmental studies. For this we analyze the transcriptomes of 11 Amoebozoa species represented in MMETSP database (marinemicroeukaryotes.org). We assembled them de novo using Velvet assembler based on de Bruijn graphs optimization algorithm. The preliminary assemblies at the output of Velvet were forwarded to Oases transcriptome assembler. To evaluate quality of transcriptome assemblies we used both QUAST
AB - Implication of metagenomic approaches show that the amount of unexplored diversity in the environmental appears to be enormous, providing a background to the term “the dark matter of life”. Amoebozoa are among the groups that are numerous in all kinds of habitats, but rarely represent more than several percent of the total number of sequences when routine DNA barcodes (SSU gene, Cox I gene) are used to study environmental diversity. To explore cryptic diversity of Amoebozoa in the natural habitats we attempted to find Amoebozoa-specific genes and gene families for future application as a DNA barcodes in environmental studies. For this we analyze the transcriptomes of 11 Amoebozoa species represented in MMETSP database (marinemicroeukaryotes.org). We assembled them de novo using Velvet assembler based on de Bruijn graphs optimization algorithm. The preliminary assemblies at the output of Velvet were forwarded to Oases transcriptome assembler. To evaluate quality of transcriptome assemblies we used both QUAST
KW - протистология
KW - филогения
KW - разнообразие
M3 - Conference contribution
SP - 246
BT - VII ECOP - ISOP Joint Meeting
ER -