organism: Penicillium chrysogenum
attributes.tag: cultivar
attributes.value: M.N. Khalil
attributes.tag: collection_date
attributes.value: 2023-12-10
attributes.tag: depth
attributes.value: 30 cm
attributes.tag: elev
attributes.value: 10 cm
attributes.tag: env_broad_scale
attributes.value: Agricultural Soil
attributes.tag: env_local_scale
attributes.value: Soil collected from Donghua University
attributes.tag: env_medium
attributes.value: Rice straw (used in pretreatment)
attributes.tag: geo_loc_name
attributes.value: China: Donghua University, Shanghai
attributes.tag: isol_growth_condt
attributes.value: Isolation Source: Soil sample collected from the Donghua University campus. The organism was isolated from soil associated with agricultural activities, specifically for its potential in the pretreatment of rice straw. Growth Conditions: Penicillium chrysogenum was grown on Potato Dextrose Agar (PDA) at 25C for 5 days. The pH of the medium was adjusted to neutral. The isolate was subsequently maintained under laboratory conditions for experimental purposes.
attributes.tag: lat_lon
attributes.value: 31.2323 N 121.4031 E
attributes.tag: library_id
attributes.value: SampleA_TruSeq_PacBio(YF20223649)
attributes.tag: title
attributes.value: F2
attributes.tag: library_strategy
attributes.value: WGS
attributes.tag: library_source
attributes.value: GENOMIC
attributes.tag: library_selection
attributes.value: RANDOM PCR
attributes.tag: library_layout
attributes.value: paired
attributes.tag: platform
attributes.value: ILLUMINA
attributes.tag: instrument_model
attributes.value: Illumina NovaSeq 6000
attributes.tag: design_description
attributes.value: "Genomic DNA was extracted using the Cetyltrimethyl Ammonium Bromide (CTAB) method with minor modifications to improve yield and purity. The DNA concentration, quality, and integrity were assessed using a Qubit Fluorometer (Invitrogen, USA) and a NanoDrop Spectrophotometer (Thermo Scientific, USA). Sequencing libraries were prepared using the Illumina TruSeq DNA Sample Preparation Kit and the Template Prep Kit (Pacific Biosciences, USA), following the respective manufacturers' protocols. Genomic DNA was fragmented using a Covaris system to generate fragments approximately 300-350 bp in size. The DNA was subjected to double-end repair, an 'A' base was added to the 3' ends, and sequencing adapters were ligated. Adapter-ligated fragments were enriched through PCR amplification and purified using magnetic beads. Library quality and fragment size distribution were verified using an Agilent Bioanalyzer 2100 and quantified using the Quant-iT PicoGreen dsDNA Assay Kit.
attributes.tag: filetype
attributes.value: fastq
attributes.tag: filename
attributes.value: f2_PE400_R1.fastq.gz
attributes.tag: filename2
attributes.value: f2_PE400_R2.fastq.gz
attributes.tag: BioSampleModel
attributes.value: MIGS.eu
attributes.tag: BioSampleModel
attributes.value: MIGS/MIMS/MIMARKS.soil