Development of new genomic microsatellite markers from robusta coffee (Coffea canephoraPierre ex A. Froehner) showing broad cross-species transferability and utility in genetic studies

Hendre, Prasad Suresh; Phanindranath, Regur; Annapurna, V; Lalremruata, Albert; Aggarwal, Ramesh K

doi:10.1186/1471-2229-8-51

Table 6 Conservation and transferability of the new SSR markers across related taxa of coffee

From: Development of new genomic microsatellite markers from robusta coffee (Coffea canephoraPierre ex A. Froehner) showing broad cross-species transferability and utility in genetic studies

Species	Coffea spp.																	Psilanthus spp.
	Erythrocoffea			Mozambicoffea					Pachycoffea							Melanocoffea		Paracoffea
SSR	C. arabica	C. congensis	Average C_taxa	C. eugenioides	C. kapakata	C. racemosa	C. salavatrix	Average C_taxa	C. excelsa	C. liberica	C. abeokuteae	C. dewevrei	C. arnoldiana	C. aruwemiensis	Average C_taxa	C. stenophylla	Average C_taxa( Coffea)	P. bengalensis	P. wightiana	Average C_taxa( Psilanthus)	Average C_taxa(for all coffees)
CaM02	+	+	1.00	+	+	+	+	1.00	+	+	+	+	-	+	0.83	+	0.92	+	+	1.00	0.93
CaM03	+	+	1.00	-	+	+	+	0.75	+	+	+	+	+	+	1.00	+	0.92	-	+	0.50	0.87
CaM08	+	+	1.00	+	+	+	+	1.00	+	+	+	+	-	+	0.83	+	0.92	+	-	0.50	0.87
CaM09	+	+	1.00	+	-	+	+	0.75	+	+	+	+	-	+	0.83	+	0.85	-	-	0.00	0.73
CaM11	+	+	1.00	+	+	+	+	1.00	+	+	+	+	+	+	1.00	+	1.00	-	-	0.00	0.87
CaM18	+	+	1.00	+	+	+	+	1.00	+	+	+	+	-	+	0.83	-	0.85	+	+	1.00	0.87
CaM20	+	+	1.00	-	-	+	-	0.25	-	+	+	+	-	-	0.50	-	0.46	-	-	0.00	0.4
CaM23	+	+	1.00	+	+	+	+	1.00	+	+	+	+	+	-	0.83	+	0.92	+	+	1.00	0.93
CaM25	+	-	0.50	+	+	+	+	1.00	+	+	+	+	+	+	1.00	+	0.92	+	+	1.00	0.93
CaM31	+	+	1.00	+	+	+	+	1.00	+	+	+	+	+	+	1.00	+	1.00	-	+	0.50	0.93
CaM33	+	-	0.50	+	+	+	+	1.00	+	+	+	+	+	+	1.00	+	0.92	-	+	0.50	0.87
CaM36	+	+	1.00	+	+	+	+	1.00	+	+	+	+	+	-	0.83	+	0.92	+	-	0.50	0.87
CaM42	+	+	1.00	+	+	+	+	1.00	-	+	+	+	+	+	0.83	+	0.92	+	+	1.00	0.93
CaM45	+	+	1.00	-	+	+	+	0.75	+	-	+	+	+	+	0.83	+	0.85	+	+	1.00	0.87
CaM49	+	+	1.00	+	+	+	+	1.00	+	+	+	+	+	-	0.83	+	0.92	-	-	0.00	0.8
CaM53	+	-	0.50	-	+	+	+	0.75	+	-	+	+	+	-	0.67	+	0.69	+	+	1.00	0.73
CaM54	-	-	0.00	-	+	+	-	0.50	-	-	-	+	-	-	0.17	-	0.23	-	+	0.50	0.27
CaM55	+	+	1.00	+	+	+	+	1.00	+	+	+	+	+	+	0.83	-	0.85	+	-	0.50	0.8
CaM57	+	+	1.00	+	+	+	+	1.00	-	+	+	+	-	-	0.50	+	0.77	+	+	1.00	0.8
CaM58	+	+	1.00	+	+	+	+	1.00	+	+	+	+	+	+	1.00	+	1.00	-	+	0.50	0.93
24 SSRs other than listed above	+	+	1.00	+	+	+	+	1.00	+	+	+	+	+	+	1.00	+	1.00	+	+	1.00	1.00
*Average T* _mark	0.98	0.91	0.94	0.89	0.95	1.00	0.95	0.95	0.91	0.93	0.98	1.00	0.84	0.84	0.91	0.91	0.93	0.80	0.84	0.82	0.92 (T_mark-taxa)/0.91 (C_taxa-mark)

+/-: Indicates 'amplification'/'No amplification' and are given a weightage of 1 and 0 for transferability/conservence calculations respectively; T_mark: Marker transferability over all the taxa; C_taxa: Marker conservance over all the taxa; T_mark-taxa: Marker transferability of all the markers over all the taxa; C_taxa-mark: Primer conservance across all the taxa over all the markers.

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ISSN: 1471-2229

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