naa a22 4500 510731104 CHVBK 20180411082953.0 cr unu---uuuuu 180411e20130401xx s 000 0 eng 10.1007/s11295-012-0573-9 doi (NATIONALLICENCE)springer-10.1007/s11295-012-0573-9 Complete plastid genome sequence of Vaccinium macrocarpon [Elektronische Daten] structure, gene content, and rearrangements revealed by next generation sequencing [Diego Fajardo, Douglas Senalik, Mercedes Ames, Huayu Zhu, Shawn Steffan, Rebecca Harbut, James Polashock, Nicholi Vorsa, Emily Gillespie, Kathy Kron, Juan Zalapa] The complete plastid genome sequence of the American cranberry (Vaccinium macrocarpon Ait.) was reconstructed using next-generation sequencing data by in silico procedures. We used Roche 454 shotgun sequence data to isolate cranberry plastid-specific sequences of "HyRed” via homology comparisons with complete sequences from several species available at the National Center for Biotechnology Information database. Eleven cranberry plastid contigs were selected for the construction of the plastid genome-based homologies and on raw reads flowing through contigs and connection information. We assembled and annotated a cranberry plastid genome (82,284 reads; 185x coverage) with a length of 176kb and the typical structure found in plants, but with several structural rearrangements in the large single-copy region when compared to other plastid asterid genomes. To evaluate the reliability of the sequence data, phylogenetic analysis of 30 species outside the order Ericales (with 54 genes) showed Vaccinium inside the clade Asteridae, as reported in other studies using single genes. The cranberry plastid genome sequence will allow the accumulation of critical data useful for breeding and a suite of other genetic studies. Springer-Verlag Berlin Heidelberg (outside the USA), 2012 Chloroplast nationallicence 454 Sequencing nationallicence Pyrosequencing nationallicence Ericales nationallicence Vaccinium nationallicence American cranberry nationallicence Fajardo Diego Department of Horticulture, University of Wisconsin, 1575 Linden Drive, 53706, Madison, WI, USA aut Senalik Douglas USDA-ARS, Vegetable Crops Research Unit, USDA, 1575 Linden Drive, 53706, Madison, WI, USA aut Ames Mercedes Department of Horticulture, University of Wisconsin, 1575 Linden Drive, 53706, Madison, WI, USA aut Zhu Huayu Department of Horticulture, University of Wisconsin, 1575 Linden Drive, 53706, Madison, WI, USA aut Steffan Shawn USDA-ARS, Vegetable Crops Research Unit, USDA, 1575 Linden Drive, 53706, Madison, WI, USA aut Harbut Rebecca Department of Horticulture, University of Wisconsin, 1575 Linden Drive, 53706, Madison, WI, USA aut Polashock James Genetic Improvement of Fruits and Vegetables Laboratory, USDA-ARS, Chatsworth, NJ, USA aut Vorsa Nicholi Blueberry and Cranberry Research and Extension Center, Rutgers University, Chatsworth, NJ, USA aut Gillespie Emily Department of Biology, Marshall University, Huntington, WV, USA aut Kron Kathy Department of Biology, Wake Forest University, Winston-Salem, NC, USA aut Zalapa Juan USDA-ARS, Vegetable Crops Research Unit, USDA, 1575 Linden Drive, 53706, Madison, WI, USA aut Tree Genetics & Genomes Springer-Verlag 9/2(2013-04-01), 489-498 1614-2942 9:2<489 2013 9 11295 https://doi.org/10.1007/s11295-012-0573-9 text/html Onlinezugriff via DOI 1 research-article jats NATIONALLICENCE 856 40 https://doi.org/10.1007/s11295-012-0573-9 text/html Onlinezugriff via DOI NATIONALLICENCE 700 1- Fajardo Diego Department of Horticulture, University of Wisconsin, 1575 Linden Drive, 53706, Madison, WI, USA aut NATIONALLICENCE 700 1- Senalik Douglas USDA-ARS, Vegetable Crops Research Unit, USDA, 1575 Linden Drive, 53706, Madison, WI, USA aut NATIONALLICENCE 700 1- Ames Mercedes Department of Horticulture, University of Wisconsin, 1575 Linden Drive, 53706, Madison, WI, USA aut NATIONALLICENCE 700 1- Zhu Huayu Department of Horticulture, University of Wisconsin, 1575 Linden Drive, 53706, Madison, WI, USA aut NATIONALLICENCE 700 1- Steffan Shawn USDA-ARS, Vegetable Crops Research Unit, USDA, 1575 Linden Drive, 53706, Madison, WI, USA aut NATIONALLICENCE 700 1- Harbut Rebecca Department of Horticulture, University of Wisconsin, 1575 Linden Drive, 53706, Madison, WI, USA aut NATIONALLICENCE 700 1- Polashock James Genetic Improvement of Fruits and Vegetables Laboratory, USDA-ARS, Chatsworth, NJ, USA aut NATIONALLICENCE 700 1- Vorsa Nicholi Blueberry and Cranberry Research and Extension Center, Rutgers University, Chatsworth, NJ, USA aut NATIONALLICENCE 700 1- Gillespie Emily Department of Biology, Marshall University, Huntington, WV, USA aut NATIONALLICENCE 700 1- Kron Kathy Department of Biology, Wake Forest University, Winston-Salem, NC, USA aut NATIONALLICENCE 700 1- Zalapa Juan USDA-ARS, Vegetable Crops Research Unit, USDA, 1575 Linden Drive, 53706, Madison, WI, USA aut NATIONALLICENCE 773 0- Tree Genetics & Genomes Springer-Verlag 9/2(2013-04-01), 489-498 1614-2942 9:2<489 2013 9 11295 Metadata rights reserved Springer special CC-BY-NC licence nationallicence BK010053 XK010053 XK010000 NATIONALLICENCE NATIONALLICENCE NL-springer