دورية أكاديمية
Data from: Genomics of Compositae weeds: EST libraries, microarrays, and evidence of introgression
| العنوان: | Data from: Genomics of Compositae weeds: EST libraries, microarrays, and evidence of introgression |
|---|---|
| المؤلفون: | Lai, Zhao, Kane, Nolan C., Kozik, Alex, Hodgins, Kathryn A., Dlugosch, Katrina M., Barker, Michael S., Matvienko, Marta, Yu, Qian, Turner, Kathryn G., Pearl, Stephanie A., Bell, Graeme D.M., Zou, Yi, Grassa, Chris, Guggisberg, Alessia, Adams, Keith L., Anderson, James V., Horvath, David P., Kesseli, Richard V., Burke, John M., Michelmore, Richard W., Rieseberg, Loren H. |
| سنة النشر: | 2011 |
| المجموعة: | Dryad Digital Repository (Duke University) |
| مصطلحات موضوعية: | ESTs, hybridization, introgression, invasive plants, microarray development, next generation sequencing, sequence assemblies, transcriptome sequencing, weeds |
| جغرافية الموضوع: | Biatorbagy, Hungary, Russell, MN, USA, Jilin, China, Dengta, Liaoning, Kampsville |
| الوقت: | Biatorbagy, Hungary, Richmond Hill, ON, Canada |
| الوصف: | PREMISE OF THE STUDY: Weeds cause considerable environmental and economic damage. However, genomic characterization of weeds has lagged behind that of model plants and crop species. Here we report on the development of genomic tools and resources for 11 weeds from the Compositae family that will serve as a basis for subsequent population and comparative genomic analyses. Because hybridization has been suggested as a stimulus for the evolution of invasiveness, we also analyze these genomic data for evidence of hybridization. METHODS: We generated 22 expressed sequence tag (EST) libraries for the 11 targeted weeds using Sanger, 454, and Illumina sequencing, compared the coverage and quality of sequence assemblies, and developed NimbleGen microarrays for expression analyses in five taxa. Where possible, we also compared the distributions of Ks values between orthologs of congeneric taxa to detect and quantify hybridization and introgression. RESULTS: Gene discovery was enhanced by sequencing from multiple tissues, normalization of cDNA libraries, and especially greater sequencing depth. However, assemblies from short sequence reads sometimes failed to resolve close paralogs. Substantial introgression was detected in Centaurea and Helianthus, but not in Ambrosia and Lactuca. CONCLUSIONS: Transcriptome sequencing using next generation platforms has greatly reduced the cost of genomic studies of non-model organisms, and the ESTs and microarrays reported here will accelerate evolutionary and molecular investigations of Compositae weeds. Our study also shows how ortholog comparisons can be used to quantify the genome-wide extent of introgression and to identify genes that have been exchanged between hybridizing taxa. |
| نوع الوثيقة: | article in journal/newspaper |
| اللغة: | unknown |
| العلاقة: | PMID:22058181; Lai Z, Kane NC, Kozik A, Hodgins KA, Dlugosch KM, Barker MS, Matvienko M, Yu Q, Turner KG, Pearl SA, Bell GDM, Zou Y, Grassa C, Guggisberg A, Adams KL, Anderson JV, Horvath DP, Kesseli RV, Burke JM, Michelmore RW, Rieseberg LH (2011) Genomics of Compositae weeds: EST libraries, microarrays, and evidence of introgression. American Journal of Botany 99(2): 209-218.; http://hdl.handle.net/10255/dryad.34804Test |
| DOI: | 10.5061/dryad.cm7td |
| الإتاحة: | https://doi.org/10.5061/dryad.cm7tdTest https://doi.org/10.5061/dryad.cm7td/1Test https://doi.org/10.5061/dryad.cm7td/2Test https://doi.org/10.5061/dryad.cm7td/3Test https://doi.org/10.5061/dryad.cm7td/4Test https://doi.org/10.5061/dryad.cm7td/5Test https://doi.org/10.5061/dryad.cm7td/6Test https://doi.org/10.5061/dryad.cm7td/7Test https://doi.org/10.5061/dryad.cm7td/8Test https://doi.org/10.5061/dryad.cm7td/9Test |
| رقم الانضمام: | edsbas.EFBAF49B |
| قاعدة البيانات: | BASE |
| DOI: | 10.5061/dryad.cm7td |
|---|