Illumina MiSeq sequencing; qiita_ptid_52:1715.McG.NQ2
Sampling was conducted at 21 plantations of various land use histories, coffee plantation ages, and soil treatments in the Union de Cooperativas Agropecuarias (UCA) Miraflor, a union of small agricultural cooperatives located within the Miraflor Nature Reserve, 30 km from the city of Esteli. Three 10 x 10 m plots were set up in each plantation, and three soil cores (20 cm depth) were obtained from random points within them. Densiometry measurements were made at dbh level, and all trees with canopies overlapping with the plot were identified. Plantation owners were surveyed for the land use history and soil treatments. All samples were extracted following the EMP protocol.
EMP V4 515f,806rbc protocol
barcode
TCCGTTCGTTTA
center_name
CCME
center_project_name
mcguire_nicaragua_soil
illumina_technology
MiSeq
linker
GT
pcr_primers
FWD:GTGCCAGCMGCCGCGGTAA; REV:GGACTACHVGGGTWTCTAAT
primer
GTGTGCCAGCMGCCGCGGTAA
run_center
CCME
run_date
4/6/12
run_prefix
McGuire_S0_L001
samp_size
.1,g
sample_center
McGuire Lab, New York NY
sequencing_meth
sequencing by synthesis
target_gene
16S rRNA
target_subfragment
V4