Publications

Manuscripts in preparation

Llorens et al. From the aphid Genome: On the evolutionary dynamics of GIN/GINGER integrases-transposases in eukaryotes

2011

BERNET, GP., MUÑOZ-POMER, A., DOMINGUEZ-ESCRIBA, L., COVELLI, L., BERNAD, L., RAMASAMY, S., FUTAMI, R., SEMPERE, JM., MOYA, A. AND LLORENS, C. 2011. GyDB Mobilomics: LTR retroelements and integrase-related transposons of the Pea aphid Acyrthosiphon pisum genome. Mobile Genetic Elements 1(2), 0-1. 1-7-2011. Landes Bioscience.

COVELLI,L., MUÑOZ-POMER,A., DOMINGUEZ-ESCRIBA,L., FUTAMI,R., BERNET,GP., MOYA,A. and LLORENS,C. 2011.
The GyDB collection is now publicly available within the Gypsy Database of Mobile Genetic Elements. Biotechvana bioinformatics:2011-CR1

MUÑOZ-POMER, A., FUTAMI, R., SEMPERE, JM., MOYA, A., and LLORENS, C. 2011. CheckAlign 2.0. Biotechvana Bioinformatics: 2011-SOFT1.

MUÑOZ-POMER, A., FUTAMI, R., COVELLI, L., DOMÍNGUEZ-ESCRIBÀ, L., BERNET, GP., SEMPERE, JM., MOYA, A., and LLORENS, C. 2011. TIME: a sequence editor for the molecular analysis of large DNA and protein sequence samples. Biotechvana Bioinformatics: 2011-SOFT2.

FUTAMI, R., MUÑOZ-POMER, A., VIU, JM, DOMÍNGUEZ-ESCRIBÀ, L., COVELLI, L., BERNET, GP., SEMPERE, JM., MOYA, A. and LLORENS, C. 2011. GPRO: the professional tool for annotation, management and functional analysis of omic databases. Biotechvana Bioinformatics: 2011-SOFT3.

LLORENS, C., FUTAMI, R., COVELLI, L., DOMINGUEZ-ESCRIBA, L., VIU, JM., TAMARIT, D., AGUILAR-RODRIGUEZ, J., VICENTE-RIPOLLES, M., FUSTER, G., BERNET, GP., MAUMUS, F., MUNOZ-POMER, A., SEMPERE, JM., LATORRE, A., and MOYA, A. 2011. The Gypsy Database (GyDB) of mobile genetic elements: release 2.0 Nucleic Acids Research (NARESE) 39 (suppl 1): D70-D74 doi: 10.1093/nar/gkq1061

2010

THE INTERNATIONAL APHID GENOMICS CONSORTIUM (including LLORENS C, FUTAMI R AND MOYA A). 2010 . Genome Sequence of the Pea Aphid Acyrthosiphon pisum. PLoS Biol, 8(2):e1000313 DOI / ISBN:10.1371/journal.pbio.1000313

2009

LLORENS, C., MUÑOZ-POMER, A., BERNAD, L., BOTELLA, H., and MOYA, A. 2009. Network dynamics of eukaryotic LTR retroelements beyond phylogenetic trees. Biology Direct, 4:41

LLORENS, C., FUTAMI, R., RENAUD, G., and MOYA, A. 2009. Bioinformatic Flowchart and Database to Investigate the Origins and Diversity of Clan AA Peptidases. Biology Direct, 4:3

LLORENS, C., MUÑOZ-POMER, A., FUTAMI, R., and MOYA, A. 2009. The GyDB Collection of Viral and Mobile Genetic Element Models. In Biotechvana Bioinformatics, CR: GyDB collection V2

2008

LLORENS, C., FUTAMI, R., BEZEMER, D. and MOYA, A. 2008. The Gypsy Database (GyDB) of mobile genetic elements. Nucleic Acids Research (NAR) 36 (Database Issue):38-46

LLORENS, C., FARES, M.A., and MOYA, A. 2008. Relationships of gag-pol diversity between Ty3/Gypsy and Retroviridae LTR retroelements and the three kings hypothesis. BMC Evolutionary Biology, 8:276

LLORENS, C., FUTAMI, R., MUÑOZ-POMER, A., VICENTE-RIPOLLES, M., and MOYA, A. 2008. Introducing Biotechvana Bioinformatics. In Biotechvana Bioinformatics, Intro

LLORENS, C., FUTAMI, R., VICENTE-RIPOLLÉS, M., and MOYA, A. 2008. The CheckAlign logo-maker application in analyses of both gapped and ungapped DNA and protein alignments. In Biotechvana Bioinformatics, SOFT:CheckAlign

LLORENS, C., FUTAMI, R., VICENTE-RIPOLLÉS, M., and MOYA, A. 2008. Phylograph: A multifunction java editor for handling phylogenetic trees. In Biotechvana Bioinformatics, SOFT: Phylograph

LLORENS, C., FUTAMI, R., and MOYA, A. 2008. The GyDB collection: Ty3/Gypsy and Retroviridae LTR retroelements and related nonviral proteins. In Biotechvana Bioinformatics, CR:GyDB collection

FUTAMI, R., LLORENS, C., VICENTE-RIPOLLÉS, M., and MOYA, A. 2008. The GyDB Package 1.0. In Biotechvana Bioinformatics, DU: GyDB Package

FUTAMI, R., LLORENS, C., VICENTE-RIPOLLÉS, M., and MOYA, A. 2008. The Join Alignments Server version 1.0. In Biotechvana Bioinformatics, SCR:JAS

FUTAMI, R., LLORENS, C., VICENTE-RIPOLLÉS, M., and MOYA, A. 2008. The Alignment Format Converter Server 1.0 In Biotechvana Bioinformatics SCR: AFC

LLORENS, C., FUTAMI, R., VICENTE-RIPOLLES, M., and MOYA, A. 2008. Biotechvana Search Engine 1.0. In Biotechvana Bioinformatics DU:BSE

FUTAMI, R., LLORENS, C., and MOYA, A. 2008. Biotechvana Queue Manager 1.0. In Biotechvana Bioinformatics, DU:BQM

FUTAMI, R., LLORENS, C., VICENTE-RIPOLLÉS, M., and MOYA, A. 2008. RMXSC server 1.0. In Biotechvana Bioinformatics, SCR: RMXSC

BERNET GP., GORRIS MT., CARBONELL EA., CAMBRA M., ASINS MJ. 2008. Citrus tristeza virus resistance in a core collection of sour orange based on a diversity study of three germplasm collections using QTL-linked markers. Plant Breeding 127(4): 398-406

2007

ASINS MJ., BOLARIN MC., PEREZ-ALFOCEA F., ESTAN MT., MARTINEZ-ANDUJAR C., ALBACETE A., VILLALTA I., BERNET GP., DODD IC., CARBONELL EA. 2010. Genetic analysis of physiological components of salt tolerance conferred by Solanum rootstocks. What is the rootstock doing for the scion?. Theoretical and Applied Genetics 121(1): 105-115

BERNET GP., FERNANDEZ-RIBACOBA J., CARBONELL EA., ASINS MJ. 2010. Comparative genome-wide segregation analysis and map construction using a reciprocal cross design to facilitate citrus germplasm utilization. Molecular Breeding 25(4): 659-673

VILLALTA I., BERNET GP., CARBONELL EA., ASINS MJ. 2007. Comparative QTL analysis of salinity tolerance in terms of fruit yield using two Solanum populations of F-7 lines. Theoretical and Applied Genetics 114(6): 1001-1017

2006

MUÑOZ-POMER FUENTES, A., KATAYAMA, T., INUZUKA, N. and WADA, K. Deterministic Anneal and Copy operations within a uni?ed DNA computation model. In Proceedings of the 2nd Workshop on Theoretical Computer Science, Seto, September 2006, pp. 41-55, Inuzuka, N. and Katayama, Y. (eds.); Nagoya Institute of Technology:Nagoya

2005

BRAMARDI SJ., BERNET GP., ASINS MJ., CARBONELL EA. 2005. Simultaneous agronomic and molecular characterization of genotypes via the generalised procrustes analysis: An application to cucumber. Crop Science 45(4): 1603-1609

BERNET GP., MARGAIX C., JACAS J., CARBONELL EA., ASINS MJ. 2005. Genetic analysis of citrus leafminer susceptibility. Theoretical and Applied Genetics 110(8): 1393-1400

2004

BERNET GP., MESTRE PF., PINA JA., ASINS MJ. 2004. Molecular discrimination of lemon cultivars. Hortscience 39(1): 165-169

ASINS MJ., BERNET GP., RUIZ C., CAMBRA M., GUERRI J., CARBONELL EA. 2004. QTL analysis of citrus tristeza virus-citradia interaction. Theoretical and Applied Genetics 108(4): 603-611

BERNET GP., BRETO MP., ASINS MJ. 2004. Expressed sequence enrichment for candidate gene analysis of citrus tristeza virus resistance. Theoretical and Applied Genetics 108(4): 592-602

2003

BERNET GP., ASINS MJ. Identification and genomic distribution of gypsy like retrotransposons in Citrus and Poncirus Theoretical and Applied Genetics 108(1): 121-130

BERNET GP., BRAMARDI S., CALVACHE D., CARBONELL EA., ASINS MJ. 2003. Applicability of molecular markers in the context of protection of new varieties of cucumber. Plant Breeding 122(2): 146-152

2002

GARCIA MR., BERNET GP., PUCHADES J., GOMEZ I., CARBONELL EA., ASINS MJ. 2002. Reliable and easy screening technique for salt tolerance of citrus rootstocks under controlled environments. Australian Journal of Agricultural Research 53(6): 653-662

2001

LLORENS, C. and MARIN, I. 2001. A mammalian gene evolved from the Integrase domain of an LTR-retrotransposon. Molecular Biology and Evolution. 18 (8): 1597-1600

2000

MARIN, I. and LLORENS, C. 2000. "Ty3/Gypsy Retrotransposons: Description of new Arabidopsis thaliana elements and evolutionary perspectives derived from comparative genomic data". Molecular Biology and Evolution. 17(7): 1040-1049