Ipomoea purpurea

RNASeq of Ipomoea purpurea: leaf tissue

Qiagen RNeasy Plant mini kit with 150 paired-end sequencing

{'age': 'Not collected', 'tissue': 'Leaf', 'ecotype': 'SH', 'isolate': 'Ind11', 'geo_loc_name': 'USA: Virginia', 'biosamplemodel': 'Plant'}

Ipomoea purpurea_B20

For RNA extractions we collected three mature leaves from all selected plants and collected root samples from a subset of 15 TA producing species and two Solanum species. The material was snap-freezed in liquid nitrogen and stored at -80C until extraction. For RNA extractions we pooled organ from the tree individuals to obtain a single pool per species. RNA was extracted with 1:1 trizolchloroform and precipitated in isopropanol and 75% ethanol. Quality control was performed by (1) electrophoresis in a 2% agarose gel, (2) evaluation of 260/280 and 260/230 absorbance ratios in a Nanodrop device, and (3) RNA quantification in Qubit. Samples that passed quality controls were sent to NovoGene for RNAseq genotyping using paired-end 150 bp libraries and an Illumina NovaSeq 6000 S4 Sequencing System.

{'tissue': 'Leaf', 'isolate': 'Ipomoea purpurea_B20', 'lat_lon': '5.9736667 N 75.7724444 W', 'dev_stage': 'Bloom', 'sample_type': 'tissue sample', 'collected_by': 'David Esteban Granados Zarate', 'geo_loc_name': 'Colombia: Antioquia, Venecia', 'biosamplemodel': 'Plant', 'collection_date': '2020-02-26', 'specimen_voucher': 'DEG 980', 'biomaterial_provider': 'Genomica Evolutiva del Metabolismo Especializado'}

Ipomoea purpurea_R8

For RNA extractions we collected three mature leaves from all selected plants and collected root samples from a subset of 15 TA producing species and two Solanum species. The material was snap-freezed in liquid nitrogen and stored at -80C until extraction. For RNA extractions we pooled organ from the tree individuals to obtain a single pool per species. RNA was extracted with 1:1 trizolchloroform and precipitated in isopropanol and 75% ethanol. Quality control was performed by (1) electrophoresis in a 2% agarose gel, (2) evaluation of 260/280 and 260/230 absorbance ratios in a Nanodrop device, and (3) RNA quantification in Qubit. Samples that passed quality controls were sent to NovoGene for RNAseq genotyping using paired-end 150 bp libraries and an Illumina NovaSeq 6000 S4 Sequencing System.

{'tissue': 'Root', 'isolate': 'R8_Ipomoea purpurea', 'lat_lon': '5.9736667 N 75.7724444 W', 'dev_stage': 'not provided', 'sample_type': 'tissue sample', 'collected_by': 'David Esteban Granados Zarate', 'geo_loc_name': 'Colombia: Antioquia,Venecia,Parque arqueologico Cerro Tusa', 'biosamplemodel': 'Plant', 'collection_date': '2020-02-26', 'specimen_voucher': 'DEG 980', 'biomaterial_provider': 'Genomica Evolutiva del Metabolismo Especializado'}