Development of Reverse Transcription Loop-Mediated Isothermal Amplification Assays Targeting Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2)

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1. 

   ScreenIT

   Jun 5, 2020

   SciScore for 10.1101/2020.03.09.983064: (What is this?)

   Please note, not all rigor criteria are appropriate for all manuscripts.

   Table 1: Rigor

   Institutional Review Board Statement	not detected.
   Randomization	not detected.
   Blinding	not detected.
   Power Analysis	not detected.
   Sex as a biological variable	not detected.
   Cell Line Authentication	not detected.

   Table 2: Resources

   Experimental Models: Cell Lines
   Sentences	Resources
   hCoV-229E and hCoV-OC43 viral RNA were isolated from culture media of infected MRC-5 cells (ATCC® CCL-171™).	MRC-5 suggested: None
   MERS-CoV RNA was isolated from cell pellet lysate of infected Vero cells (ATCC® CCL-81™).	Vero suggested: None
   Software and Algorithms
   Sentences	Resources
   LAMP and RT-LAMP reaction: LAMP reaction was performed with reaction mixture containing following components: 1.6 μM FIP/BIP primers, 0.2 μM F3/B3 primers, 0.4 …

   SciScore for 10.1101/2020.03.09.983064: (What is this?)

   Please note, not all rigor criteria are appropriate for all manuscripts.

   Table 1: Rigor

   Institutional Review Board Statement	not detected.
   Randomization	not detected.
   Blinding	not detected.
   Power Analysis	not detected.
   Sex as a biological variable	not detected.
   Cell Line Authentication	not detected.

   Table 2: Resources

   Experimental Models: Cell Lines
   Sentences	Resources
   hCoV-229E and hCoV-OC43 viral RNA were isolated from culture media of infected MRC-5 cells (ATCC® CCL-171™).	MRC-5 suggested: None
   MERS-CoV RNA was isolated from cell pellet lysate of infected Vero cells (ATCC® CCL-81™).	Vero suggested: None
   Software and Algorithms
   Sentences	Resources
   LAMP and RT-LAMP reaction: LAMP reaction was performed with reaction mixture containing following components: 1.6 μM FIP/BIP primers, 0.2 μM F3/B3 primers, 0.4 μM LF/LB primers, 1x Isothermal Amplification Buffer II (NEB, 20 mM Tris-HCl pH 8.8, 10 mM (NH4)2SO4, 150 mM KCl, 2 mM MgSO4, 0.1% Tween® 20), 6 mM MgSO4 (NEB, final 8mM Mg2+), 1.4 mM each dNTP (Enzynomics), 0.4 μM SYTO-9 (Invitrogen) and 6 U Bst3.0 DNA polymerase (NEB) in total 15 μl reaction volume.	LAMP suggested: (LAMP, RRID:SCR_001740)

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   Results from OddPub: We did not detect open data. We also did not detect open code. Researchers are encouraged to share open data when possible (see Nature blog).

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   Results from LimitationRecognizer: An explicit section about the limitations of the techniques employed in this study was not found. We encourage authors to address study limitations.

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   Results from TrialIdentifier: No clinical trial numbers were referenced.

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   Results from Barzooka: We did not find any issues relating to the usage of bar graphs.

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   Results from JetFighter: We did not find any issues relating to colormaps.

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   Results from rtransparent:

   • No conflict of interest statement was detected. If there are no conflicts, we encourage authors to explicit state so.
   • Thank you for including a funding statement. Authors are encouraged to include this statement when submitting to a journal.
   • No protocol registration statement was detected.

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   Read the original source
2. Version published to 10.1016/j.jmoldx.2020.03.006

   Jun 1, 2020
3. 

   Version published to 10.1101/2020.03.09.983064v2 on bioRxiv

   Mar 24, 2020
4. 

   Version published to 10.1101/2020.03.09.983064v1 on bioRxiv

   Mar 12, 2020