Journal: Data in Brief

Article Title: Data on dissolved metals in Terengganu waters of South China Sea during pre-, post-, and Northeast Monsoon season

doi: 10.1016/j.dib.2019.104806

Figure Lengend Snippet: Specifications Table

Article Snippet: Dissolved metals were pre-concentrated using Chelex-100 resin (sodium form, mesh size of 100–200, powder form, Bio-Rad Laboratories), packed in acid-washed PTFE tubes, washed using ammonium acetate in order to remove saline matrix [ , ] and were eluted using 2 M nitric acid, adopted from William [ ] and Bowles et al. [ ].

Techniques: Sampling, Concentration Assay, Spectrophotometry

Journal: STAR Protocols

Article Title: Orthogonal protocols for DNA extraction from filamentous fungi

doi: 10.1016/j.xpro.2022.101126

Figure Lengend Snippet: Mean (± Standard Error) extraction time, yield and integrity across for each method

Article Snippet: The protocols in order are: Protocol 1: CTAB (hexadecyltrimethylammonium bromide) Protocol 2: Qiagen (Germany) DNeasy plant pro mini kit Protocol 3: Chelex Protocol 4: Chelex with proteinase K

Techniques: Extraction

Journal: STAR Protocols

Article Title: Orthogonal protocols for DNA extraction from filamentous fungi

doi: 10.1016/j.xpro.2022.101126

Figure Lengend Snippet: Quantification of DNA extracts using Qubit and Nanodrop (A) DNA yield per mg of starting material was highest for CTAB and Chelex extractions. However, both methods exhibited much more variation in yield than the DNeasy kit. White diamonds indicate mean values, thick black lines indicate median values, boxes correspond to the 1 st and 3 rd quartiles while whiskers correspond to the lowest value or 1.5× the Interquartile Range (IQR), whichever is smallest. (B) Protein and RNA contamination (quantified using 260/280 ratio) ratios were relatively consistent for all protocols. However, the readings for the DNeasy kit were much more variable than the CTAB and Chelex extractions. The addition of Proteinase K to the Chelex extraction appeared to increase the protein contamination. Dashed lines show the boundaries for an optimal value (1.7 and 1.9). White diamonds indicate mean values, thick black lines indicate median values, boxes correspond to the 1 st and 3 rd quartiles while whiskers correspond to the lowest value or 1.5× the Interquartile Range (IQR), whichever is smallest. (C) All extracts appeared to contain some reagent contamination (quantified using 260/230 ratio). While the results were consistent for most methods, the DNeasy protocol with optional freeze-drying exhibited much higher variation. Dashed lines show the boundaries for optimal values (1.8 and 2.2). White diamonds indicate mean values, thick black lines indicate median values, boxes correspond to the 1 st and 3 rd quartiles while whiskers correspond to the lowest value or 1.5× the Interquartile Range (IQR), whichever is smallest.

Article Snippet: The protocols in order are: Protocol 1: CTAB (hexadecyltrimethylammonium bromide) Protocol 2: Qiagen (Germany) DNeasy plant pro mini kit Protocol 3: Chelex Protocol 4: Chelex with proteinase K

Techniques: Extraction

Journal: STAR Protocols

Article Title: Orthogonal protocols for DNA extraction from filamentous fungi

doi: 10.1016/j.xpro.2022.101126

Figure Lengend Snippet: Qualitative assessment of the genomic DNA demonstrated that the CTAB protocol was optimal for the extraction of high-molecular weight DNA across fungal species Freeze-drying was found to further improve the efficiency of recovery by decreasing the intensity of the smears (degraded DNA). The Chelex extraction with the addition of Proteinase K also resulted in the recovery of relatively large fragments of DNA. As the elution volume used in each extraction affected the DNA concentration, Chelex extracts were run separately from the CTAB and DNeasy extracts. Lanes 1–16 represent the CTAB extraction protocol (1–8 with an initial freeze-drying step). Lanes 17–32 represent the DNeasy protocol (17–24 with an initial freeze-drying step). Lanes 33–40 represent the Chelex extraction. Lanes 40–48 represent the Chelex extraction with proteinase K added. Strain IDs are given in the . Image is a composite of two gels: one combining CTAB and DNeasy extractions and a second for Chelex extractions.

Article Snippet: The protocols in order are: Protocol 1: CTAB (hexadecyltrimethylammonium bromide) Protocol 2: Qiagen (Germany) DNeasy plant pro mini kit Protocol 3: Chelex Protocol 4: Chelex with proteinase K

Techniques: Extraction, High Molecular Weight, Concentration Assay

Journal: STAR Protocols

Article Title: Orthogonal protocols for DNA extraction from filamentous fungi

doi: 10.1016/j.xpro.2022.101126

Figure Lengend Snippet:

Article Snippet: The protocols in order are: Protocol 1: CTAB (hexadecyltrimethylammonium bromide) Protocol 2: Qiagen (Germany) DNeasy plant pro mini kit Protocol 3: Chelex Protocol 4: Chelex with proteinase K

Techniques: Recombinant, Staining, Spectrophotometry