Summary
Resource Type
Organism
Abbreviation
A. saccharum
Genus
Acer
Species
saccharum
Common Name
Sugar Maple
Organism Image
Description

Other Common Names: rock maple, hard maple
Order: Sapindales
Family: Aceraceae
Chromosome Number: 2n=26

Cross Reference
Transcriptome
NameProgramDate Constructed
de novo Sugar Maple (Acer saccharum)Trinity, built under bowtie-1.0.1 and samtools-0.1.19; CD-HIT-ESTFeb 24th, 2016
[Archived] de novo Sugar Maple (Acer saccharum) - 010515Trinity, built under bowtie-1.0.1 and samtools-1.1; CD-HIT-ESTJan 5th, 2015
Analysis Details
Provides detailed information on the programs used to assemble and annotate the data.
NameProgramDate Constructed
Sugar Maple Ozone TreatmentsHTSeq; RPKMApr 18th, 2016
Sugar Maple (blastx against TrEMBL)blastxMar 10th, 2016
Interpro Analysis of Sugar Maple (Acer saccharum)InterProScanMar 10th, 2016
Sugar Maple (blastx against sprot)blastxMar 10th, 2016
de novo Sugar Maple (Acer saccharum)Trinity, built under bowtie-1.0.1 and samtools-0.1.19; CD-HIT-ESTFeb 24th, 2016
[Archived] de novo Sugar Maple (Acer saccharum) - 010515Trinity, built under bowtie-1.0.1 and samtools-1.1; CD-HIT-ESTJan 5th, 2015
Biological Samples
NameTissueTreatmentDescription
SMWND3LNot setNot setwounded (hole punched) seedlings at 3 hours - leaf sample
SMHEAT24LNot setNot setseedlings exposed to heat (40C) for 24 hours - leaf sample
SMDRHT7DPNot setNot setseedlings exposed to drought for 7 days - petiole sample
SMDRHT32DPNot setNot setseedlings exposed to drought for 32 days - petiole sample
SMCTRLBRNot setNot setcontrol (second) seedlings- root sample
SMCTRLBPNot setNot setcontrol (second) seedlings - petiole sample
SMCTRLARNot setNot setcontrol seedlings- root sample
SMCTRLAPNot setNot setcontrol seedlings - petiole sample
SMCOLD24LNot setNot setseedlings exposed 24 hours cold (4C) - leaf sample
SM-CO-14Not setNot setseedlings exposed to ozone (10ppb) for 14 days (6 pooled)

Pages

Predicted SSRS (genomic)

Publication: Staton M, Best T, Khodwekar S, Owusu S, Xu T, Xu Y, Jennings T, Cronn R, Arumuganathan AK, Coggeshall M, Gailing O. Preliminary Genomic Characterization of Ten Hardwood Tree Species from Multiplexed Low Coverage Whole Genome Sequencing. PloS one. 2015 Dec 23;10(12):e0145031.

In order to develop SSR resources for ten important North American hardwood tree species, we individually barcoded and multiplex sequenced DNA from ten hardwood forest tree species using short reads produced from an Illumina HiSeq. Raw reads can be downloaded from the NCBI short read archive, project SRP021923. Bioinformatic processing included trimming, assembly, SSR identification and primer design, processing details including scripts are available.

Statistics (combination of two sequenced libraries):

Untrimmed Pairs 6,125,961
Untrimmed Bases 1,237,444,122
Reconstructed Fragments 675,883
Reconstructed Fragments - Bases 102,639,483
Dinucleotide repeats with primers 708
Trinucleotide repeats with primers 159
Tetranucleotide repeats with primers 24

Download Files:

Polymorphic SSRS

A subset of the predicted SSRs have been screened for polymorphism and published in a population diversity study:

Khodwekar S, Staton M, Coggeshall MV, Carlson JE, Gailing O. Nuclear microsatellite markers for population genetic studies in sugar maple (Acer saccharum Marsh.). Annals of Forest Research. 2015 Apr 15;58(2):193-204.