Development of novel genic microsatellite markers from transcriptome sequencing in sugar maple (Acer saccharum Marsh.)

被引：8
|
作者：
Harmon M. [1 ]
Lane T. [2 ]
Staton M. [2 ]
Coggeshall M.V. [3 ]
Best T. [4 ]
Chen C.-C. [5 ,6 ]
Liang H. [5 ]
Zembower N. [4 ]
Drautz-Moses D.I. [7 ]
Hwee Y.Z. [7 ]
Schuster S.C. [7 ]
Schlarbaum S.E. [8 ]
Carlson J.E. [4 ]
Gailing O. [1 ,9 ]
机构：
[1] School of Forest Resources and Environmental Science, Michigan Technological University, 1400 Townsend Drive, Houghton, 49931, MI
[2] Department of Entomology and Plant Pathology, University of Tennessee, Knoxville, 37996, TN
[3] Department of Forestry, University of Missouri, Columbia, 65274, MO
[4] Department of Ecosystem Science and Management, Department of Plant Science, Pennsylvania State University, University Park, 16802, PA
[5] Department of Genetics and Biochemistry, Clemson University, Clemson, 29630, SC
[6] College of Agriculture, Fisheries and Forestry, Fiji National University, Nausori
[7] Singapore Centre for Environmental Life Sciences Engineering, Nanyang Technological University, Singapore
[8] Department of Forestry, Wildlife and Fisheries, University of Tennessee, Knoxville, 37996-4563, TN
[9] Forest Genetics and Forest Tree Breeding, Faculty of Forest Sciences, University of Goettingen, Buesgenweg 2, Goettingen
来源：
BMC Research Notes | / 10卷 / 1期
基金：
美国国家科学基金会;
关键词：
Acer saccharum; EST-SSRs; Next-generation sequencing; Transferability;
D O I：
10.1186/s13104-017-2653-2
中图分类号：
学科分类号：
摘要：
Background: Sugar maple (Acer saccharum Marsh.) is a hardwood tree species native to northeastern North America and economically valued for its wood and sap. Yet, few molecular genetic resources have been developed for this species to date. Microsatellite markers have been a useful tool in population genetics, e.g., to monitor genetic variation and to analyze gene flow patterns. The objective of this study is to develop a reference transcriptome and microsatellite markers in sugar maple. Findings: A set of 117,861 putative unique transcripts were assembled using 29.2 Gb of RNA sequencing data derived from different tissues and stress treatments. From this set of sequences a total of 1068 microsatellite motifs were identified. Out of 58 genic microsatellite markers tested on a population of 47 sugar maple trees in upper Michigan, 22 amplified well, of which 16 were polymorphic and 6 were monomorphic. Values for expected heterozygosity varied from 0.224 to 0.726 for individual loci. Of the 16 polymorphic markers, 15 exhibited transferability to other Acer L. species. Conclusions: Genic microsatellite markers can be applied to analyze genetic variation in potentially adaptive genes relative to genomic reference markers as a basis for the management of sugar maple genetic resources in the face of climate change. © 2017 The Author(s).
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