caa a22 4500 467894906 CHVBK 20180406152800.0 cr unu---uuuuu 170328e20061101xx s 000 0 eng 10.1007/s11103-006-9035-9 doi (NATIONALLICENCE)springer-10.1007/s11103-006-9035-9 Expressed Sequence Tags from loblolly pine embryos reveal similarities with angiosperm embryogenesis [Elektronische Daten] [John Cairney, Li Zheng, Allison Cowels, Joseph Hsiao, Victoria Zismann, Jia Liu, Shu Ouyang, Francoise Thibaud-Nissen, John Hamilton, Kevin Childs, Gerald S. Pullman, Yiting Zhang, Thomas Oh, C. Robin Buell] The process of embryogenesis in gymnosperms differs in significant ways from the more widely studied process in angiosperms. To further our understanding of embryogenesis in gymnosperms, we have generated Expressed Sequence Tags (ESTs) from four cDNA libraries constructed from un-normalized, normalized, and subtracted RNA populations of zygotic and somatic embryos of loblolly pine (Pinus taeda L.). A total of 68,721 ESTs were generated from 68,131 cDNA clones. Following clustering and assembly, these sequences collapsed into 5,274 contigs and 6,880 singleton sequences for a total of 12,154 non-redundant sequences. Searches of a non-identical amino acid database revealed a putative homolog for 9,189 sequences, leaving 2,965 sequences with no known function. More extensive searches of additional plant sequence data sets revealed a putative homolog for all but 1,388 (11.4%) of the sequences. Using gene ontologies, a known function could be assigned for 5,495 of the 12,154 total non-redundant sequences with 13,633 associations in total assigned. When compared to ∼72,000 sequences in a collated P. taeda transcript assembly derived from >245,000 ESTs derived from root, xylem, stem, needles, pollen cone, and shoot ESTs, 3,458 (28.5%) of the non-redundant embryo sequences were unique and thereby provide a valuable addition to development of a complete loblolly pine transcriptome. To assess similarities between angiosperm and gymnosperm embryo development, we examined our EST collection for putative homologs of angiosperm genes implicated in embryogenesis. Out of 108 angiosperm embryogenesis-related genes, homologs were present for 83 of these genes suggesting that pine contains similar genes for embryogenesis and that our RNA sampling methods were successful. We also identified sequences from the pine embryo transcriptome that have no known function and may contribute to the programming of gene expression and embryo development. Springer Science+Business Media B.V., 2006 Genomics nationallicence Transcriptome nationallicence Pine nationallicence Plantembryogenesis nationallicence Gymnosperm nationallicence EST nationallicence Cairney John School of Biology and Institute of Paper Science and Technology, Georgia Institute of Technology, 500, 10th Street, NW, 30332-0620, Atlanta, GA, USA aut Zheng Li The Institute for Genomic Research, 9712 Medical Center Dr, 20850, Rockville, MD, USA aut Cowels Allison The Institute for Genomic Research, 9712 Medical Center Dr, 20850, Rockville, MD, USA aut Hsiao Joseph The Institute for Genomic Research, 9712 Medical Center Dr, 20850, Rockville, MD, USA aut Zismann Victoria The Institute for Genomic Research, 9712 Medical Center Dr, 20850, Rockville, MD, USA aut Liu Jia The Institute for Genomic Research, 9712 Medical Center Dr, 20850, Rockville, MD, USA aut Ouyang Shu The Institute for Genomic Research, 9712 Medical Center Dr, 20850, Rockville, MD, USA aut Thibaud-Nissen Francoise The Institute for Genomic Research, 9712 Medical Center Dr, 20850, Rockville, MD, USA aut Hamilton John The Institute for Genomic Research, 9712 Medical Center Dr, 20850, Rockville, MD, USA aut Childs Kevin The Institute for Genomic Research, 9712 Medical Center Dr, 20850, Rockville, MD, USA aut Pullman Gerald S. School of Biology and Institute of Paper Science and Technology, Georgia Institute of Technology, 500, 10th Street, NW, 30332-0620, Atlanta, GA, USA aut Zhang Yiting School of Biology and Institute of Paper Science and Technology, Georgia Institute of Technology, 500, 10th Street, NW, 30332-0620, Atlanta, GA, USA aut Oh Thomas School of Biology and Institute of Paper Science and Technology, Georgia Institute of Technology, 500, 10th Street, NW, 30332-0620, Atlanta, GA, USA aut Buell C. Robin The Institute for Genomic Research, 9712 Medical Center Dr, 20850, Rockville, MD, USA aut Plant Molecular Biology Kluwer Academic Publishers 62/4-5(2006-11-01), 485-501 0167-4412 62:4-5<485 2006 62 11103 https://doi.org/10.1007/s11103-006-9035-9 text/html Onlinezugriff via DOI 1 research-article jats NATIONALLICENCE 856 40 https://doi.org/10.1007/s11103-006-9035-9 text/html Onlinezugriff via DOI NATIONALLICENCE 700 1- Cairney John School of Biology and Institute of Paper Science and Technology, Georgia Institute of Technology, 500, 10th Street, NW, 30332-0620, Atlanta, GA, USA aut NATIONALLICENCE 700 1- Zheng Li The Institute for Genomic Research, 9712 Medical Center Dr, 20850, Rockville, MD, USA aut NATIONALLICENCE 700 1- Cowels Allison The Institute for Genomic Research, 9712 Medical Center Dr, 20850, Rockville, MD, USA aut NATIONALLICENCE 700 1- Hsiao Joseph The Institute for Genomic Research, 9712 Medical Center Dr, 20850, Rockville, MD, USA aut NATIONALLICENCE 700 1- Zismann Victoria The Institute for Genomic Research, 9712 Medical Center Dr, 20850, Rockville, MD, USA aut NATIONALLICENCE 700 1- Liu Jia The Institute for Genomic Research, 9712 Medical Center Dr, 20850, Rockville, MD, USA aut NATIONALLICENCE 700 1- Ouyang Shu The Institute for Genomic Research, 9712 Medical Center Dr, 20850, Rockville, MD, USA aut NATIONALLICENCE 700 1- Thibaud-Nissen Francoise The Institute for Genomic Research, 9712 Medical Center Dr, 20850, Rockville, MD, USA aut NATIONALLICENCE 700 1- Hamilton John The Institute for Genomic Research, 9712 Medical Center Dr, 20850, Rockville, MD, USA aut NATIONALLICENCE 700 1- Childs Kevin The Institute for Genomic Research, 9712 Medical Center Dr, 20850, Rockville, MD, USA aut NATIONALLICENCE 700 1- Pullman Gerald S. School of Biology and Institute of Paper Science and Technology, Georgia Institute of Technology, 500, 10th Street, NW, 30332-0620, Atlanta, GA, USA aut NATIONALLICENCE 700 1- Zhang Yiting School of Biology and Institute of Paper Science and Technology, Georgia Institute of Technology, 500, 10th Street, NW, 30332-0620, Atlanta, GA, USA aut NATIONALLICENCE 700 1- Oh Thomas School of Biology and Institute of Paper Science and Technology, Georgia Institute of Technology, 500, 10th Street, NW, 30332-0620, Atlanta, GA, USA aut NATIONALLICENCE 700 1- Buell C. Robin The Institute for Genomic Research, 9712 Medical Center Dr, 20850, Rockville, MD, USA aut NATIONALLICENCE 773 0- Plant Molecular Biology Kluwer Academic Publishers 62/4-5(2006-11-01), 485-501 0167-4412 62:4-5<485 2006 62 11103 Metadata rights reserved Springer special CC-BY-NC licence nationallicence BK010053 XK010053 XK010000 NATIONALLICENCE NATIONALLICENCE NL-springer