Lunardon et al. 2020

accession	aligned reads	unaligned reads	source db	is refset? Alignments that are reference sets (value of 1) are mergers of other component libraries used to compile master small RNA annotations for a species.	tissue	ecotype / cultivar	genotype	replicate id Alignments that are biological replicates have the same replicate ids	refset id If set, the alignment is part of the indicated reference set	description
Cassa_Cal	29,609,115	9,460,955	The Meyers lab at the Donald Danforth Plant Science Center website	0	callus	Red Local -Cameroon-	wt	A	1	callus -- control conditions
Cassa_Lf	26,395,277	6,775,374	The Meyers lab at the Donald Danforth Plant Science Center website	0	leaf	Red Local -Cameroon-	wt	B	1	leaf -- control conditions
Cassa_Ste	32,199,113	8,409,661	The Meyers lab at the Donald Danforth Plant Science Center website	0	stem	Red Local -Cameroon-	wt	C	1	stem -- control conditions
sm3684M	32,068,696	10,426,180	The Meyers lab at the Donald Danforth Plant Science Center website	0	male flower	SM3684-13	wt	D	1	male flower -- control conditions
sm3684_13F	28,563,721	6,946,343	The Meyers lab at the Donald Danforth Plant Science Center website	0	female flower	GM4289-1	wt	E	1	female flower -- control conditions
SRR1027040	4,245,440	1,588,644	SRA	0	leaf and root	SC124	wt	F	1	leaf and root (2-months-old plants -- folded and fully expanded leaf) -- control conditions
SRR1027041	4,048,735	1,550,212	SRA	0	leaf and root	SC124	wt	G	1	leaf and root (2-months-old plants -- folded and fully expanded leaf) -- gradual cold acclimation
SRR1027042	3,752,866	1,513,947	SRA	0	leaf and root	SC124	wt	H	1	leaf and root (2-months-old plants -- folded and fully expanded leaf) -- cold shock
SRR1027043	4,004,060	1,768,525	SRA	0	leaf and root	SC124	wt	I	1	leaf and root (2-months-old plants -- folded and fully expanded leaf) -- cold stress after cold acclimation
SRR1557206	15,309,332	2,583,657	SRA	0	leaf	KU50	wt	J	1	leaf (150 days after planting -- fully expanded leaf) -- control conditions
SRR1557207	17,066,266	4,110,477	SRA	0	storage root	KU50	wt	K	1	storage root (150 days after planting) -- control conditions
SRR1557208	19,811,686	5,273,944	SRA	0	leaf	Arg7	wt	L	1	leaf (150 days after planting -- fully expanded leaf) -- control conditions
SRR1557209	17,376,444	7,843,493	SRA	0	storage root	Arg7	wt	M	1	storage root (150 days after planting) -- control conditions
SRR1557210	13,444,803	4,412,857	SRA	0	leaf	W14	wt	N	1	leaf (150 days after planting -- fully expanded leaf) -- control conditions
SRR1557211	11,763,188	7,862,293	SRA	0	storage root	W14	wt	O	1	storage root (150 days after planting) -- control conditions
SRR210763	5,283,651	2,811,339	SRA	0	leaf and stem	MBRA685	wt	P	1	leaf and stem (6-weeks-old plants) -- control conditions
SRR3051996	3,242,116	2,401,072	SRA	0	leaf	T200	wt	Q	1	leaf (10-days-old plants -- newly developing upper most leaves) -- collected 32 days after been transferred to Jiffy pellets
SRR3052009	5,679,469	3,378,945	SRA	0	leaf	T200	wt	R	1	leaf (10-days-old plants -- newly developing upper most leaves) -- collected 67 days after been transferred to Jiffy pellets
SRR3052015	3,572,776	1,861,544	SRA	0	leaf	TM3	wt	S	1	leaf (10-days-old plants -- newly developing upper most leaves) -- collected 67 days after been transferred to Jiffy pellets
SRR315731	5,932,989	2,864,898	SRA	0	leaf and stem	MBRA685	wt	T	1	leaf and stem (6-weeks-old plants) -- collected 0-6-24h and 2-5-7-15days post-inoculation with Xanthomonas axonopodis pv manihotis -- strain Xam CIO151

	ShortStack	miRBase22-BestBlastHit	Khatabi_et_al_2016
MIRNA	99	116	0
nearMIRNA	36	11	0
siRNA20	25	1	0
siRNA21	2,227	28	2
siRNA22	2,218	7	0
siRNA23	38	3	0
siRNA24	29,355	1	0
OtherRNA	2,869	11	1
NotExpressed	0	0	0

Data from Lunardon et al. (2020)

Genome and annotations summary

Manihot esculenta (Cassava) genome build 6 (mes-b6)

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Download genome assembly FASTA file

BLAST search

Small RNA Loci

Small RNA-seq data

Reference Set

Invidiual alignments (20)