Genomic screening in dioecious "yerba mate" tree (Ilex paraguariensis A. St. Hill., Aquifoliaceae) through representational difference analysis
The "yerba mate" tree, Ilex paraguariensis, is a functionally dioecious crop species with economic relevance in several South American countries. We report a genomic screening accomplished through representational difference analysis (RDA) in male and female I. paraguariensis trees. The ai...
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2010
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| 003 | AR-BaUEN | ||
| 005 | 20230518205429.0 | ||
| 008 | 190411s2010 xx ||||fo|||| 00| 0 eng|d | ||
| 024 | 7 | |2 scopus |a 2-s2.0-77951939780 | |
| 024 | 7 | |2 Molecular Sequence Numbers |a GENBANK: AB005247, AC098812, AC117724, AC118839, AC147784, AC190209, AC214276, AC225524, ACB45081, AF083074, AF111709, AF206938, AF265664, AK110296, AM440321, AM465566, AM467085, AM471443, AM475021, AM480525, AM483312, AM778093, AP009686, AY136628, AY245368, AY305266, AY493568, AY684361, AY727932, BA000042, CAN67018, CAN68184, CAN69016, CAN72485, CP000143, CP000661, CP000822, CR388413, CR749162, CU915747, FJ147957, FJ148001, GQ284849, GS598719, GS598720, GS598721, GS598722, GS598723, GS598724, GS598725, U46209, X13886, X98736, Y12432, ZP_01816618, ZP_03446131; | |
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| 040 | |a Scopus |b spa |c AR-BaUEN |d AR-BaUEN | ||
| 030 | |a GENEA | ||
| 100 | 1 | |a Gottlieb, A.M. | |
| 245 | 1 | 0 | |a Genomic screening in dioecious "yerba mate" tree (Ilex paraguariensis A. St. Hill., Aquifoliaceae) through representational difference analysis |
| 260 | |c 2010 | ||
| 270 | 1 | 0 | |m Gottlieb, A. M.; Laboratorio de Citogenética y Evolución (LaCyE), Departamento de Ecología, Genética y Evolución, Universidad de Buenos Aires, 4to. Piso, Pabellón II, Ciudad Universitaria, C1428EHA Ciudad Autónoma de Buenos Aires, Argentina; email: gottlieb@ege.fcen.uba.ar |
| 506 | |2 openaire |e Política editorial | ||
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| 520 | 3 | |a The "yerba mate" tree, Ilex paraguariensis, is a functionally dioecious crop species with economic relevance in several South American countries. We report a genomic screening accomplished through representational difference analysis (RDA) in male and female I. paraguariensis trees. The aim of the present paper was to investigate the occurrence of sex-related genomic differences in order to develop an early gender detection molecular method that could help reducing energy inputs during the "yerba mate" processing and that could be suitable for breeding programs. An intra-experiment redundancy was detected via SSCP analysis and sequence characterization. Taking together both reciprocal RDA assays, fragments isolated can be discriminated into three main categories. The first category of fragments shows spurious affinities with available deposited sequences and could be considered as specific to I. paraguariensis. The second category comprises sequences identified as organellar or ribosomal plant DNA. Sequences grouped in the third category involve clones akin to conserved domains of retrotransposons (RNaseH, integrases and/or chromodomains) from at least two distinct lineages of Ty3/Gypsy retrotransposons and one from Ty1/Copia retroelements, which in addition are associated to sex determination regions of the Solanaceae, Caricaceae and Salicaceae. A contig sequence was assembled that codes for an integrase core domain and a chromodomain. The phylogenetic analysis of the so-called IPRE (for I. paraguariensis retroelement) integrase domain indicates that it belongs to the Del lineage of the Chromoviridae. This is the first report of mobile elements isolated and detected from the "yerba mate" tree. Although RDA derived fragments, so far tested, have been retrieved from both sexes with similar sequences, association to sex related regions cannot be completely discarded. Implications of present results are further discussed. © Springer Science+Business Media B.V. 2010. |l eng | |
| 536 | |a Detalles de la financiación: Universidad de Buenos Aires, EX–317 | ||
| 536 | |a Detalles de la financiación: Consejo Nacional de Investigaciones Científicas y Técnicas, PIP 5927 | ||
| 536 | |a Detalles de la financiación: Agencia Nacional de Promoción Científica y Tecnológica, BID 1728 OC-AR PICT 14119, 14170 | ||
| 536 | |a Detalles de la financiación: Acknowledgments The authors are indebted to L. D. Belingheri, S. D. Prat Kricun, and R. M. Mayol from EE INTA Cerro Azul (Misiones, Argentina) who kindly provided specimens from living collections; to G. Giberti who determined the gender of the plants and to E. R. Hasson and to G. A. Tuskan whose invaluable suggestions helped us to improve a previous version of this manuscript and to V. A. Confalonieri for critical reading of the current version of the manuscript. We are also grateful to an anonymous referee for helpful comments. Several grants from the Consejo Nacional de Investigac-iones Científicas y Técnicas (PIP 5927), the University of Buenos Aires (EX–317) and the Agencia Nacional de Promoción Científica y Tecnológica (BID 1728 OC-AR PICT 14119 and 14170) are gratefully acknowledged. | ||
| 593 | |a Laboratorio de Citogenética y Evolución (LaCyE), Departamento de Ecología, Genética y Evolución, Universidad de Buenos Aires, 4to. Piso, Pabellón II, Ciudad Universitaria, C1428EHA Ciudad Autónoma de Buenos Aires, Argentina | ||
| 593 | |a Consejo Nacional de Investigaciones Científicas y Técnicas, Avenida Rivadavia 1917, C1033AAJ Ciudad Autónoma de Buenos Aires, Argentina | ||
| 690 | 1 | 0 | |a CHROMOVIRIDAE |
| 690 | 1 | 0 | |a GENDER DETECTION |
| 690 | 1 | 0 | |a ILEXPARAGUARIENSIS |
| 690 | 1 | 0 | |a RDA |
| 690 | 1 | 0 | |a TRANSPOSABLE ELEMENTS |
| 690 | 1 | 0 | |a PLANT DNA |
| 690 | 1 | 0 | |a ARTICLE |
| 690 | 1 | 0 | |a CLASSIFICATION |
| 690 | 1 | 0 | |a GENETIC LINKAGE |
| 690 | 1 | 0 | |a GENETICS |
| 690 | 1 | 0 | |a GENOMICS |
| 690 | 1 | 0 | |a ILEX PARAGUARIENSIS |
| 690 | 1 | 0 | |a PHYLOGENY |
| 690 | 1 | 0 | |a PLANT GENOME |
| 690 | 1 | 0 | |a RETROPOSON |
| 690 | 1 | 0 | |a DNA, PLANT |
| 690 | 1 | 0 | |a GENOME, PLANT |
| 690 | 1 | 0 | |a GENOMICS |
| 690 | 1 | 0 | |a ILEX PARAGUARIENSIS |
| 690 | 1 | 0 | |a LINKAGE (GENETICS) |
| 690 | 1 | 0 | |a PHYLOGENY |
| 690 | 1 | 0 | |a RETROELEMENTS |
| 690 | 1 | 0 | |a AQUIFOLIACEAE |
| 690 | 1 | 0 | |a CARICACEAE |
| 690 | 1 | 0 | |a CROTON OVALIFOLIUS |
| 690 | 1 | 0 | |a ILEX PARAGUARIENSIS |
| 690 | 1 | 0 | |a MAGNOLIOPHYTA |
| 690 | 1 | 0 | |a SALICACEAE |
| 690 | 1 | 0 | |a SALIX |
| 690 | 1 | 0 | |a SOLANACEAE |
| 700 | 1 | |a Poggio, L. | |
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