matzLABDATA
Porites Stress Data Gene expression changes in P. lobata and P. compressa under elevated heat/light, copper poisoning and injury/regeneration. Sequences and raw gene expression data. Data_files/PoritesStressDB.htmlData_files/PoritesStressDB_1.htmlshapeimage_2_link_0
Genetic linkage map of 
Acropora millepora The map was constructed based on the mapping family of 80 larvae and their parents, originating from Nelly Bay at Magnetic Island, Queensland Basic map info: length 1493 cM, 393 gene-based SNPs (derived from 454 data), 36 microsatellites, 14 linkage groups, average marker distance 3.4 cM. The SNP assays are designed for Hight Resolution Melting (HRM) analysis using LighCycler 480 (Roche) or equivalent instrument. See footnotes at the end of the main data file for methods summary. Markers, assays, mapping locations in the consensus map, annotation of corresponding genes, methods summary (footnotes) - excel table map image (jpeg) (Markers shown in red reside in suggested or putative stress-related genes) Data_files/Amillepora_linkage_map-1.xlsData_files/coral%20linkage%20map%20may2009.jpgshapeimage_3_link_0shapeimage_3_link_1
Coral transcriptomes: Acropora tenuis_(larvae + recruits) v. jan2012 Acropora millepora_(larvae + adults) v. jan2012 - we suggest using the transcriptome assembled and annotated by Moya et al 2012 (doi: 10.1111/j.1365-294X.2012.05458.x) instead, click here to download the data and annotations Acropora hyacinthus_(larvae) v. jan2012 Porites astreoides (adult) - Symbiodinium reads ecxluded, with extra annotations; reference Kenkel et al Mol.Ecol.2013 Assemblies as of January 2012, assembled and annotated by Eli Meyer (elimeyer[at]mail.utexas.edu). The linked files above (right-click to download) contain fasta-formatted contig and non-redundant singleton sequences with annotations in the fasta definition line, plus accessory files summarizing the annotations and the process of assembly. Contact matz[at]mail.utexas.edu if you need raw data. Note: Compared to previous version, the A.millepora assembly was extended by publicly available ESTs and 454 data from several populations of adults shared by Petra Souter (p.lundgren[at]aims.gov.au). P.astreoides was extended by ESTs from SymBioSys database. A.hyacinthus is old data reassembled by Newbler 2.6 with an option -urt (“use read tips”), which seems to help when the coverage is low (all the Jan2012 assemblies are done with this option). Note 2: If you are using these assemblies for mapping RNA-seq reads, keep in mind that a unique gene is an isogroup. In other words, don’t discard a RNA-seq read as a non-unique one if it maps to multiple contigs or isotigs, as long as they are all within the same isogroup. See also Methods page for library preparation protocol and bioinformatic scripts with instructions. Previous assemblies Porites astreoides_(adult) v. jan2012 amillepora_old_assembly_v2.fasta.zip (May 2009) Acropora hyacinthus (larvae) v.1 (July 2010) Porites astreoides (adult) v.1 (July 2010) Acropora millepora (larvae) v.3 (July 2010) Data_files/Atenuis_jan2012.zipData_files/Amillepora_jan2012.ziphttp://onlinelibrary.wiley.com/doi/10.1111/j.1365-294X.2012.05458.x/fullhttps://dl.dropboxusercontent.com/u/37523721/moya_transcr_amillepora_igmNN_withannotations.zipData_files/Ahyacinthus_jan2012.zipData_files/P_astreoides_db_annot_april2013.ziphttp://sequoia.ucmerced.edu/SymBioSys/Methods.htmlData_files/Pastreoides_jan2012.zipData_files/amillepora_old_assembly_v2.fasta.zipData_files/hyacinthus.fasta.zipData_files/astreoides.fasta.zipData_files/millepora.fasta.zipshapeimage_4_link_0shapeimage_4_link_1shapeimage_4_link_2shapeimage_4_link_3shapeimage_4_link_4shapeimage_4_link_5shapeimage_4_link_6shapeimage_4_link_7shapeimage_4_link_8shapeimage_4_link_9shapeimage_4_link_10shapeimage_4_link_11shapeimage_4_link_12