Abstract
The advent of next-generation genome sequencing technologies has allowed approaching the sequencing and analysis of large and complex conifer genomes. Maritime pine (Pinus pinaster Ait.) is an economically and ecologically important conifer species widely distributed in South-West Europe, which shows a significant genetic and adaptive variability. This chapter takes on the task of reviewing the insights into the maritime pine genome sequencing breakthrough and its impact on downstream analysis. Maritime pine genome sequencing and assembly approaches are described along with the impact of related tools. A section of the state-of-the-art research on comparative, functional, structural, and translational genomics aimed at dissecting the genetic basis and the specific regulation of biological processes underlying the expression of traits of interest in maritime pine and other conifers is also described. Perspectives about the impact of these tools as well as additional research approaches are discussed.
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Acknowledgements
The research leading to these results has received funding from the EU FP5 programme grant agreement QLK3-CT2002-01973 (TREESNIPS). The EU FP7 programme under REA grant agreements no 289841 (ProCoGen). The EU H2020 programme grant agreements no 676876 (GenTree); no 773383 (B4EST); no 676559 (ELIXIR-EXCELERATE); no 824110 (EASI-Genomics. PID 7825-ImPiONT); People Programme (Marie Curie Actions) of the EU FP7 is acknowledged under REA grant agreement PIEF-GA-2013-627761; Cost Action FP1406; Plant KBBE programme, Scientific and Technological Cooperation in Plant Genome Research PLE2009-0016 (SUSTAINPINE); ERA-NET Cofund ForestValue project MULTIFOREVER supported by ANR (France, ANR-19-SUM2-0002-01), FNR (Germany), MINCyT (Argentina), MINECO-AEI, RTA-2007-00084-00-00 and RTA2010-00120-C02 (Spain), MMM (Finland) and VINNOVA (Sweden) and EU H2020 programme grant agreements no 773324. Fundação para a Ciência e a Tecnologia (FCT) through grants BioISI (UIDB/04046/2020 and UIDP/04046/2020), the doctoral fellowships SFRH/BD/111687/2015 (I. Modesto), SFRH/BD/128827/2017 (A. Alves) and SFRH/BD/79779/2011 (A. Rodrigues), and project PTDC/BAA-MOL/28379/2017—LISBOA-01-0145-FEDER-028379 (FCT/MCTES and FEDER)); Conseil de la Région Nouvelle Aquitaine, France, through grant EMBRYOsoMATURE (17006494-0741); Spanish Ministries MEC, MICINN, MINECO and MICIU (BIO2007-29814-E; BIO2010-12302-E; AGL2014-54698R; BIO2015-69285-R; AGL2015-66048-C2; RTI2018-094041-B-I00; RTI2018-094691-B-C3; RTI2018-098015-B-I00), Junta de Andalucía grants (BIO-474 and BIO-114) and University of Alcalá grant (UAH-AE 2017-2), the doctoral contracts BES-2016-077347 (M. Callejas-Díaz), BES-2016-076833 (M. López-Hinojosa), PRE2019-090357 (L.F. Manjarrez) and 49-FPI-INIA-2014 (L. Hernández-Escribano) are also acknowledged for financial support.
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Sterck, L. et al. (2022). Maritime Pine Genomics in Focus. In: De La Torre, A.R. (eds) The Pine Genomes. Compendium of Plant Genomes. Springer, Cham. https://doi.org/10.1007/978-3-030-93390-6_5
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