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The DNA comes from a 'mini-core' collection developed in the framework of the Generation Challenge Programme (GCP). The collection currently comprises 52 Musa accessions taken from the Cirad collection located in Guadeloupe (west indies). It was assembled using the GCP criteria regarding the genetic diversity representation, the duplication at the Bioversity International Transit Centre (ITC), the use in breeding programmes and the FAO designation. 

For each of the accessions, ten extractions, each of three grams of frozen leaves were made with the Matab method (Risterucci et al., 2000). About 1 miligram of DNA was obtained per accession. The DNA samples are stored and distributed in PCR grade water.

The DNA samples are distributed to Musa research community via the Musa Genome Resource Centre (MGRC) based at IEB, Olomouc, Czech Republic upon request. The MGRC operates at a cost-recovery basis and the recipients are expected to cover packing and shipment costs. In order to have sufficient researchers benefiting from this service, a maximum of 1 μg of DNA per accession is provided and only under this agreement.

Warning: Until we are able to provide the definitive fingerprinting profile, we cannot guarantee the identity of the DNA sample.

 

Sample Number	Codes	Name	Section	Species /Group	Sub-species /Sub-group	Country of collect	Availability
1	ITC0582	Lady Finger	Eumusa	AAB		India	Yes
2	ITC0649	Foconah	Eumusa	AAB	Pome / Prata	Cameroon	Yes
3	ITC0962	Prata Ana	Eumusa	AAB	Pome / Prata	Brazil	Yes
4	KUWU	Pisang Klutuk Wulung	Eumusa	balbisiana	type 4	Indonesia (IDN 056)	Yes
5	ITC1156	Pisang Batu	Eumusa	balbisiana	type 4	Indonesia (IDN 080)	Yes
6	ITC0623	Banksii	Eumusa	acuminata	banksii	Papua New Guinea	Yes
7	ITC0253	Borneo	Eumusa	acuminata	microcarpa	Malaysia, S/E Borneo	Yes
8	ITC0249	Calcutta 4	Eumusa	acuminata	burmannicoides	India	Yes
9	ITC0652	Kluai Tiparot	Eumusa	ABB	Klue teparod	Thailand (THA 020)	Yes
10	ITC1325	Orishele	Eumusa	AAB	Plantain	Nigeria	Yes
11	ITC0472	Pelipita	Eumusa	ABB	Pelipita	Philippines	Yes
12	ITC0767	Dole	Eumusa	ABB	Bluggoe		Yes
13	GRN	Grande Naine	Eumusa	AAA	Cavendish	Guadeloupe	Yes
14	ITC0420	Pisang Kayu	Eumusa	AAA	Orotav	Indonesia (IDN 098)	Yes
15	ITC1028	Agutay	Eumusa	acuminata	errans	Philippines	Yes
16	ITC0660	Khae (Phrae)	Eumusa	acuminata	siamea	Thailand (THA 015)	Yes
17	ITC0769	Figue Pomme Geante	Eumusa	AAB	Silk	Guadeloupe	Yes
18	ITC1138	Saba	Eumusa	ABB	Saba	Philippines	Yes
19	ITC1064	Pisang bakar	Eumusa	AAA	Ambon	Indonesia (IDN 106)	Yes
20	ITC1483	Monthan	Eumusa	ABB	Monthan	India	Yes
21	ITC1120	Tani	Eumusa	balbisiana			Yes
22	ITC0283	Long Tavoy	Eumusa	acuminata	burmannica		Yes
23	ITC0245	Safet Velchi	Eumusa	AB cv		India	Yes
24	ITC0654	Petite Naine	Eumusa	AAA	Cavendish		Yes
25	ITC0766	Paliama	Eumusa	Acuminata	banksii	Papua New Guinea (PNG 067)	Yes
26	ITC1482	Poyo	Eumusa	AAA	Cavendish	Nigeria	Yes
27	ITC0335	Popoulou	Eumusa	AAB	Popoulou/Maia Maoli	Cameroon	Yes
28	SRDJ	Simili Radjah	Eumusa	ABB	Peyan	From India through DRC	Yes
29	ITC1481	Gros Michel	Eumusa	AAA	Gros Michel	Guadeloupe	Yes
30	ITC1152	Wompa	Eumusa	AS		Papua New Guinea (PNG 063)	Yes
31	ITC1034	Kunnan	Eumusa	AB cv		India, Kerala	Yes
32	ITC0312	Pisang Jari Buaya	Eumusa	AA cv (18)	Pisang jari buaya	Malaysia, kelatan Thai border	Yes
33	ITC0653	Pisang Mas	Eumusa	AA cv (2)	Sucrier	Malaysia	Yes
34	ITC0843	Pisang Raja Bulu	Eumusa	AAB	Pisang raja	Indonesia (IND 093)	Yes
35	ITC0277	Leite	Eumusa	AAA	Rio		Yes
36	ITC0020	Ice Cream	Eumusa	ABB	Ney Mannan		Yes
37	ITC1177	Zebrina	Eumusa	acuminata	zebrina	Indonesia	Yes
38	ITC1187	Tomolo	Eumusa	AA cv	Cooking AA	Papua New Guinea (PNG023)	Yes
39	ITC0247	Honduras	Eumusa	balbisiana	type 1	Honduras (seeds)	Yes
40	BVEL	Lal Velchi	Eumusa	balbisiana	type 3	India	Yes
41	ITC0659	Namwa Khom	Eumusa	ABB	Pisang Awak	Thailand (THA 011)	Yes
42	ITC0084	Mbwazirume	Eumusa	AAA	Lujugira/Mutika	Burundi	Yes
43	ITC0082	Intokatoke	Eumusa	AAA	Lujugira/Mutika	Burundi	Yes
44	ITC1123	Yangambi km5	Eumusa	AAA	Ibota	DRC	Yes
45	ITC1140	Red Yade	Eumusa	AAB	Plantain	Cameroon	Yes
46	ITC0243	Pisang Rajah	Eumusa	AAB	Nendra padaththi	Malaysia	Yes
47	ITC1238	Yawa 2	Eumusa x Australismusa	ABBT	ABBT Ssp/sgr 501	Papua New Guinea (PNG 072)	Yes
48	ITC1441	Pisang Ceylan	Eumusa	AAB	Mysore	Malaysia	Yes
49	ITC0856	Schizocarpa	Eumusa	schizocarpa		Papua new Guinea	Yes
50	ITC1072	Textilis	Australimusa	textilis			Yes
51	ITC0637	Musa ornata	Rhodochlamys	Ornata	Ornata		Yes
52	ITC1511	DH Pahang (Cirad930)	Eumusa	acuminata	malaccensis	Guadeloupe	Yes

22 SSR markers enabling distinction between the 52 reference accessions

Name	Motifs	Forward sequences (5'-3')	Reverse sequences (3'-5')	T	size (bp)	Alleles
mMaCIR03	(GA)10	TGACCCACGAGAAAAGAAGC	CTCCTCCATAGCCTGACTGC	55	110-138	14
mMaCIR07	(GA)13	AACAACTAGGATGGTAATGTGTGGAA	GATCTGAGGATGGTTCTGTTGGAGTG	53	146-184	18
mMaCIR08	(TC)6N24(TC)7	ACTTATTCCCCCGCACTCAA	ACTCTCGCCCATCTTCATCC	55	252-298	12
mMaCIR13	(GA)16N76(GA)8	TCCCAACCCCTGCAACCACT	ATGACCTGTCGAACATCCTTT	53	270-298	12
mMaCIR39	(CA)5GATA(GA)5	AACACCGTACAGGGAGTCAC	GATACATAAGGCAGTCACATTG	52	310-350	12
mMaCIR40	(GA)13	GGCAGCAACAACATACTACGAC	CATCTTCACCCCCATTCTTTTA	54	149-187	21
mMaCIR45	(TA)4CA(CTCGA)4	TGCTGCCTTCATCGCTACTA	ACCGCACCTCCACCTCCTG	57	253-275	6
mMaCIR152	(CTT)18	CCACCTTTGAGTTCTCTCC	TTTCCCTCTTCGATTCTGT	54	139-175	20
mMaCIR195	(GA)17	GAATCGCCTTAGTCTCACC	TCATGTGCTCCCATCTTT	54	239-295	16
mMaCIR214	(AC)7	CCATTGAGAGATCAACCC	CTATTTGACGTTGGTGGTC	53	96-116	9
Ma1_32	(GA)17AA(GA) 8AA(GA)2	GGAACAGGTGATCAAAGTGTGA	TTGATCATGTGCCGCTACTG	60	227-270	20
Ma3_90	-	GCACGAAGAGGCATCAC	GGCCAAATTTGATGGACT	53	142-176	18
mMaCIR01	GA(20)	CACGACGTTGTAAAACGACTT AAAGGTGGGTTAGCATTAGG	TTTGATGTCACAATGGTGTTCC	55	238-314	22
mMaCIR150	(CA) X10	CACGACGTTGTAAAACGA CATGCTGTCATTGCCTTGT	GAATGCTGATACCTCTTTGG	54	257-270	5
mMaCIR164	(AC) X14	CACGACGTTGTAAAACGAC AAGACAAGTTCCATTGCTTG	GTTCGGGCTTTCGGT	55	255-409	17
mMaCIR196	(TA) X4, (TC) X 17, (TC) X 3	CACGACGTTGTAAAACGA CGCTCCAAACCTCCCTTT	CGATGCCACACTGGAC	55	168-192	12
mMaCIR231	(TC) X10	CACGACGTTGTAAAACGACG CAAATAGTCAAGGGAATCA	ACCCAGGTCTATCAGGTCA	55	238-286	19
mMaCIR24	(TC)7	CACGACGTTGTAAAACGACA TCTTTTCTTATCCTTCTAACG	ATTAGATCACCGAAGAACTC	48	237-297	19
mMaCIR260	(TG) X8	CACGACGTTGTAAAACGAC GATGTTTGGGCTGTTTCTT	AAGCAGGTCAGATTGTTCC	55	194-230	13
mMaCIR264	(CT) X17	CACGACGTTGTAAAACGAC AGGAGTGGGAGCCTATTT	CTCCTCGGTCAGTCCTC	53	234-274	23
mMaCIR27	(GA)9	CACGACGTTGTAAAACGACGG GGAACAGCACGGTCACAT	CCACTCCCCCAACAACACGA	58	231-259	12
mMaCIR307	(CA) X6	CACGACGTTGTAAAACGACAGA CTTGTATCGCTTGGTAAA	ACGCTGCACCAGTCAA	54	160-172	6

SSR patterns of each individual of the study were analysed following the protocol of Roy et al. (1996) applied with the automated infrared fluorescence technology of a sequencer LICOR IR2 (LICOR, Lincoln, USA). For a given SSR locus, the forward SSR primer was designed with a 5'-end M13 extension (5'-CACGACGTTGTAAAACGAC-3').
The PCR amplification was performed in a 384 wells Eppendorf mastercycler with 10 ng of Musa DNA in a 10µl final volume of buffer (10 mM Tris-HCl (pH 8), 100 mM KCl, 0.05% w/v gelatin, and 2.0 mM MgCl2) containing 0.08 µM of the M13-labelled primer, 0.1 µM of the other primer, 160 µM of dNTP, 1 U of Taq DNA polymerase (Life Technologies, U.S.A.) and 0.06 µM of M13 primer-fluorescent dye IR700 or IR800 (Biolegio, Netherlands).

The PCR programme contain an initial denaturation step at 94°C for 5 min; a touch-down protocol involving initial decrease of annealing temperature by 1 ºC for the first cycles depending on the primer pairs used, and a fixed annealing temperatures for further 35 cycles. In all cases denaturation occurred  at  94°C for 45 s, annealing at lowest TM of primer (between 43 et 52°C) for 60 s, and elongation at 72°C for 60 s. A final elongation step at 72°C for 5 min is added to all the protocols.

In each plate of PCR a Musa standard made with a mix of three Musa accessions (Pisang Jari Buaya, Popoulou/Maia Maoli and Tomolo) is added in order to improve allele sizes determination.
For each run a ladder (range 71-367 bp) is added at the hedges of the gel. IR700 or IR800-labeled PCR products were diluted 8-fold and 5-fold respectively, subjected to electrophoresis in a 6.5% polyacrylamide gel and then sized by the IR fluorescence scanning system of the sequencer.