2019
Solórzano, Sofía; Chincoya, Delil A.; Sanchez-Flores, Alejandro; Estrada, Karel; Díaz-Velásquez, Clara E.; González-Rodríguez, Antonio; Vaca-Paniagua, Felipe; Dávila, Patricia; Arias, Salvador
De novo assembly discovered novel structures in genome of plastids and revealed divergent inverted repeats in mammillaria (Cactaceae, caryophyllales) Artículo de revista
En: Plants, vol. 8, iss. 10, 2019, ISSN: 22237747.
Resumen | Enlaces | Etiquetas: Divergent inverted repeats, Novel gene rearrangements, Pseudogenization, Short-globose cacti
@article{nokey,
title = {De novo assembly discovered novel structures in genome of plastids and revealed divergent inverted repeats in mammillaria (Cactaceae, caryophyllales)},
author = {Sofía Solórzano and Delil A. Chincoya and Alejandro Sanchez-Flores and Karel Estrada and Clara E. Díaz-Velásquez and Antonio González-Rodríguez and Felipe Vaca-Paniagua and Patricia Dávila and Salvador Arias},
doi = {10.3390/plants8100392},
issn = {22237747},
year = {2019},
date = {2019-01-01},
journal = {Plants},
volume = {8},
issue = {10},
publisher = {MDPI AG},
abstract = {The complete sequence of chloroplast genome (cpDNA) has been documented for single large columnar species of Cactaceae, lacking inverted repeats (IRs). We sequenced cpDNA for seven species of the short-globose cacti of Mammillaria and de novo assembly revealed three novel structures in land plants. These structures have a large single copy (LSC) that is 2.5 to 10 times larger than the small single copy (SSC), and two IRs that contain strong differences in length and gene composition. Structure 1 is distinguished by short IRs of <1 kb composed by rpl23-trnI-CAU-ycf2; with a total length of 110,189 bp and 113 genes. In structure 2, each IR is approximately 7.2 kb and is composed of 11 genes and one Intergenic Spacer-(psbK-trnQ)-trnQUUG- rps16-trnK-UUU-matK-trnK-UUU-psbA-trnH-GUG-rpl2-rpl23-trnI-CAU-ycf2; with a total size of 116,175 bp and 120 genes. Structure 3 has divergent IRs of approximately 14.1 kb, where IRA is composed of 20 genes: PsbA-trnH-GUG-rpl23-trnI-CAU-ycf2-ndhB-rps7-rps12-trnV-GAC-rrn16-ycf68-trnI-GAU-trnA-AGC-rrn23- rrn4.5-rrn5-trnR-ACG-trnN-GUU-ndhF-rpl32; and IRB is identical to the IRA, but lacks rpl23. This structure has 131 genes and, by pseudogenization, it is shown to have the shortest cpDNA, of just 107,343 bp. Our findings show that Mammillaria bears an unusual structural diversity of cpDNA, which supports the elucidation of the evolutionary processes involved in cacti lineages.},
keywords = {Divergent inverted repeats, Novel gene rearrangements, Pseudogenization, Short-globose cacti},
pubstate = {published},
tppubtype = {article}
}
The complete sequence of chloroplast genome (cpDNA) has been documented for single large columnar species of Cactaceae, lacking inverted repeats (IRs). We sequenced cpDNA for seven species of the short-globose cacti of Mammillaria and de novo assembly revealed three novel structures in land plants. These structures have a large single copy (LSC) that is 2.5 to 10 times larger than the small single copy (SSC), and two IRs that contain strong differences in length and gene composition. Structure 1 is distinguished by short IRs of <1 kb composed by rpl23-trnI-CAU-ycf2; with a total length of 110,189 bp and 113 genes. In structure 2, each IR is approximately 7.2 kb and is composed of 11 genes and one Intergenic Spacer-(psbK-trnQ)-trnQUUG- rps16-trnK-UUU-matK-trnK-UUU-psbA-trnH-GUG-rpl2-rpl23-trnI-CAU-ycf2; with a total size of 116,175 bp and 120 genes. Structure 3 has divergent IRs of approximately 14.1 kb, where IRA is composed of 20 genes: PsbA-trnH-GUG-rpl23-trnI-CAU-ycf2-ndhB-rps7-rps12-trnV-GAC-rrn16-ycf68-trnI-GAU-trnA-AGC-rrn23- rrn4.5-rrn5-trnR-ACG-trnN-GUU-ndhF-rpl32; and IRB is identical to the IRA, but lacks rpl23. This structure has 131 genes and, by pseudogenization, it is shown to have the shortest cpDNA, of just 107,343 bp. Our findings show that Mammillaria bears an unusual structural diversity of cpDNA, which supports the elucidation of the evolutionary processes involved in cacti lineages.