Suitability of chloroplast LSU rDNA and its diverse group I introns for species recognition and phylogenetic analyses of lichen-forming Trebouxia algae |
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| Authors: | EM del Campo LM Casano F Gasulla E Barreno |
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| Institution: | 1. Department of Plant Biology, University of Alcalá, 28871 Alcalá de Henares (Madrid), Spain;2. ICBIBE, Department of Botany, University of Valencia, Faculty of Biology, C/ Dr. Moliner 50, 46100 Burjassot (Valencia), Spain;1. Department of BT-Convergent Pharmaceutical Engineering, SunMoon University, #100, Kalsan-ri, Tangjeong-myeon, Asansi, Chungnam 31460, Republic of Korea;2. Korea Polar Research Institute (KOPRI), 213-3, Songdo-dong, Yeonsu-gu, Incheon 21990, Republic of Korea;3. Polar Sciences, University of Science & Technology, Yuseong-gu, Daejeon 34113, Republic of Korea;1. Biodiversity and Climate Research Centre (BiK-F), Senckenberg Gesellschaft für Naturforschung, 60325 Frankfurt am Main, Germany;2. Departamento de Biología Vegetal II, Facultad de Farmacia, Universidad Complutense de Madrid, 28040 Madrid, Spain;3. Institute of Ecology, Evolution and Diversity, Goethe Universität, Max-von-Laue-Str. 13, D-60438 Frankfurt, Germany;1. Department of BT-convergent Pharmaceutical Engineering, SunMoon University, #100, Kalsan-ri, Tangjeong-myeon, Asansi, Chungnam 31460, Republic of Korea;2. Korea Polar Research Institute (KOPRI), 213-3, Songdo-dong, Yeonsu-gu, Incheon 21990, Republic of Korea;3. Polar Sciences, University of Science & Technology, Yuseong-gu, Daejeon 34113, Republic of Korea;1. Department of BT-convergent Pharmaceutical Engineering, SunMoon University, #100, Kalsan-ri, Tangjeong-myeon, Asansi, Chungnam 31460, Republic of Korea;2. Korea Polar Research Institute (KOPRI), 213-3, Songdo-dong, Yeonsu-gu, Incheon 21990, Republic of Korea;3. Polar Sciences, University of Science & Technology, Yuseong-gu, Daejeon 34113, Republic of Korea;1. Korea Polar Research Institute (KOPRI), 213-3, Songdo-dong, Yeonsu-gu, Incheon 21990, Republic of Korea;2. Department of BT-convergent Pharmaceutical Engineering, SunMoon University, #100, Kalsan-ri, Tangjeong-myeon, Asansi, Chungnam 31460, Republic of Korea;1. Department of BT-convergent Pharmaceutical Engineering, SunMoon University, #100, Kalsan-ri, Tangjeong-myeon, Asansi, Chungnam 31460, Republic of Korea;2. Korea Polar Research Institute (KOPRI), 213-3, Songdo-dong, Yeonsu-gu, Incheon 21990, Republic of Korea;3. Polar Sciences, University of Science & Technology, Yuseong-gu, Daejeon 34113, Republic of Korea;4. Department of Food Science and Technology, Sejong University, 98 Kunja-dong, Kwangjin-gu, Seoul 05006, Republic of Korea |
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| Abstract: | To date, species identification of lichen photobionts has been performed principally on the basis of microscopic examinations and molecular data from nuclear-encoded genes. In plants, the chloroplast genome has been more readily exploited than the nuclear genome for systematic investigations. At the present time, very little information is available about the chloroplast genome of lichen-forming algae. For this reason, we have sequenced a portion of the gene encoding for the chloroplast large sub-unit rRNA (LSU rDNA) as a new molecular marker. Sequencing of the chloroplast LSU rDNAs revealed the existence of an unusual diversity of group I introns (a total of 31) within 15 analyzed Trebouxia species. The number, sequence and insertion site of these introns were very different among species, contributing to their recognition. A relatively large intron-free portion of the chloroplast LSU rDNA and part of the nuclear ribosomal cistron (18S–5.8S–26S) between the nuclear internal transcribed spacers (nrITS) were subjected to phylogenetic analyses. The obtained results indicate that data combination from both nuclear and chloroplast sequences can improve phylogenetic accuracy. Herein, we propose the suitability of both intronic and exonic sequences of the chloroplast LSU rDNA for species recognition, and an exonic sequence spanning from position 879 to 1837 in the Escherichia coli 23S rDNA for phylogenetic analyses of Trebouxia phycobionts. |
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