Colinearity of putative flowering gene in both sugarcane and sorghum
- 72 Downloads
Sugarcane (Saccharum spp.) and sorghum (Sorghum spp.) have become increasingly important crops for biofuels production. Sugarcane has an autopolyploid complex genome, whereas sorghum has a diploid simple genome. Flowering is one of the sugar-related agronomic traits in both species. Here, we obtained cDNA of inflorescences at 0–15 cm from S. spontaneum using cDNA-amplified restriction fragment length polymorphisms to develop flower transcriptome profiling with 26 primer combinations. A total of 183 transcript-derived fragments (TDFs) were screened and 96 TDFs were sequenced. Out of 96 TDFs, 26 were selected as putative flowering genes to study collinearity with the sorghum genome. For gene collinearity, a genetic linkage map with 169 SSR co-dominant markers and 12 TDF marker loci were mapped to 14 linkage groups collectively spanning 1077.8 cM and corresponding to the 10 sorghum chromosomes. Interestingly, 9 TDF marker loci could be mapped to 5 linkage groups. In this study, we successfully identified the homologous location of sugarcane flowering TDFs in the sorghum genome and found that 4DS_1X and 2DS_3E TDFs may serve as candidate specific markers linked to flowering in both sorghum and sugarcane.
KeywordsCollinearity RILs SSR cDNA-AFLP Sugarcane Sorghum
We gratefully acknowledge Grants from the National Science and Technology Development Agency, Assoc. Prof. Dr.Julapark Chunwong for providing Joinmap® mapping Program and Dr.Sompong Chankaew for helpful advice on the analysis of the genetic linkage map.
- Gupta P, Naithani S, Tello-Ruiz MK, Chougule K, D’Eustachioc P, Fabregat A, Jiao Y, Keays M, Lee YK, Kumari S, Mulvaney J, Olson A, Preece J, Stein J, Wei S, Weiser J, Huerta L, Petryszak R, Kersey P, Stein LD, Ware D, Jaiswal P (2016) Gramene database: navigating plant comparative genomics resources. Curr Plant Biol 7–8:10–15CrossRefGoogle Scholar
- Harry FC (1975) Flowering of sugarcane: mechanics and control. Technical Bulletin No.92. HAWAII Agricultural Experiment Station, University of HAWAIIGoogle Scholar
- Julien R (1972) The photoperiodic control of flowering in Saccharum. Proc Int Soc Sugarcane Technol 14:323–333Google Scholar
- Lekgari AL (2010) Genetic mapping of quantitative trait loci associated with bioenergy traits, and the assessment of genetic variability in sweet sorghum (Sorghum bicolor (L.). Moench). Ph.D. Dissertation, Agronomy and Horticulture, University of Nebraska, Lincoln, NEGoogle Scholar
- Ming R, Liu SC, Lin YR, da Silva J, Wilson W, Braga D, van Deynze A, Wenslaff TF, Wu KK, Moore PH, Burnquist W, Sorrells ME, Irvine JE, Paterson AH (1998) Detailed alignment of saccharum and sorghum chromosomes: comparative organization of closely related diploid and polyploid genomes. Genetics 150(4):1663–1682PubMedPubMedCentralGoogle Scholar
- Qin LHJ, Overmars Helder H, Popeijus J, van der Voort Rouppe, Groenink W, van Koert P, Schots A, Bakker J, Smant G (2000) An efficient cDNA AFLP-based strategy for the identification of putative pathogenicity factors from the potato cyst nematode Globodera rostochiensis. Mol Plant Microbe Interact 13:830–836CrossRefGoogle Scholar
- Van Ooijen JW, Voorrips RE (2001) Joinmap 3.0 software for the calculation of genetic linkage maps. Plant Research International, Wageningen, The NetherlandsGoogle Scholar
- Wang J, Roe B, Macmil S, Yu Q, Murray JE, Tang H, Chen C, Najar F, Wiley G, Bowers J, Sluys Marie-Anne V, Rokhsar DS, Hudson ME, Moose SP, Paterson AH, Ray MR (2010) Microcollinearity between autopolyploid sugarcane and diploid sorghum genomes. Genomic 11:261Google Scholar