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10.1016/j.mcp.2021.101707 http://scihub22266oqcxt.onion/10.1016/j.mcp.2021.101707 33609730!7888997!33609730     free     free     free Deprecated: Implicit conversion from float 211.6 to int loses precision in C:\Inetpub\vhosts\kidney.de\httpdocs\pget.php on line 534 Deprecated: Implicit conversion from float 211.6 to int loses precision in C:\Inetpub\vhosts\kidney.de\httpdocs\pget.php on line 534 Deprecated: Implicit conversion from float 211.6 to int loses precision in C:\Inetpub\vhosts\kidney.de\httpdocs\pget.php on line 534 Deprecated: Implicit conversion from float 211.6 to int loses precision in C:\Inetpub\vhosts\kidney.de\httpdocs\pget.php on line 534 Deprecated: Implicit conversion from float 211.6 to int loses precision in C:\Inetpub\vhosts\kidney.de\httpdocs\pget.php on line 534 Deprecated: Implicit conversion from float 211.6 to int loses precision in C:\Inetpub\vhosts\kidney.de\httpdocs\pget.php on line 534 Deprecated: Implicit conversion from float 245.2 to int loses precision in C:\Inetpub\vhosts\kidney.de\httpdocs\pget.php on line 534       Mol+Cell+Probes 2021 ; 56 (ä): 101707 Nephropedia Template TP {{tp|p=33609730|t=2021. Thermodynamic evaluation of the impact of DNA mismatches in PCR-type SARS-CoV-2 primers and probes |pdf=|usr=}}{{33609730}} gab.com Text Thermodynamic evaluation of the impact of DNA mismatches in PCR-type SARS-CoV-2 primers and probes JO: Mol Cell Probes http://www.kidney.de/pget.php?&tw=1&pmid=33609730 #FOAvip BACKGROUND: DNA mismatches can affect the efficiency of PCR techniques if the intended target has mismatches in primer or probe regions. The accepted rule is that mismatches are detrimental as they reduce the hybridization temperatures, yet a more quantitative assessment is rarely performed. METHODS: We calculate the hybridization temperatures of primer/probe sets after aligning to SARS-CoV-2, SARS-CoV-1 and non-SARS genomes, considering all possible combinations of single, double and triple consecutive mismatches. We consider the mismatched hybridization temperature within a range of 5 ( composite function)C to the fully matched reference temperature. RESULTS: We obtained the alignments of 19 PCR primers sets that were recently reported for the detection of SARS-CoV-2 and to 21665 SARS-CoV-2 genomes as well as 323 genomes of other viruses of the coronavirus family of which 10 are SARS-CoV-1. We find that many incompletely aligned primers become fully aligned to most of the SARS-CoV-2 when mismatches are considered. However, we also found that many cross-align to SARS-CoV-1 and non-SARS genomes. CONCLUSIONS: Some primer/probe sets only align substantially to most SARS-CoV-2 genomes if mismatches are taken into account. Unfortunately, by the same mechanism, almost 75% of these sets also align to some SARS-CoV-1 and non-SARS viruses. It is therefore recommended to consider mismatch hybridization for the design of primers whenever possible, especially to avoid undesired cross-reactivity. Twit Text FOAVip Thermodynamic evaluation of the impact of DNA mismatches in PCR-type SARS-CoV-2 primers and probes ????Mol Cell Probes http://www.kidney.de/pget.php?&tw=1&pmid=33609730 #FOAvip Twit Text # Free Paper on # # # # # LINK http://www.kidney.de/pget.php?&tw=1&pmid=33609730 #FOAvip English Wikipedia <ref>{{Cite pmid|33609730}}</ref> Thermodynamic evaluation of the impact of DNA mismatches in PCR-type SARS-CoV-2 primers and probes #MMPMID33609730 Miranda P; Weber G Mol Cell Probes 2021[Apr]; 56 (ä): 101707 PMID33609730show ga BACKGROUND: DNA mismatches can affect the efficiency of PCR techniques if the intended target has mismatches in primer or probe regions. The accepted rule is that mismatches are detrimental as they reduce the hybridization temperatures, yet a more quantitative assessment is rarely performed. METHODS: We calculate the hybridization temperatures of primer/probe sets after aligning to SARS-CoV-2, SARS-CoV-1 and non-SARS genomes, considering all possible combinations of single, double and triple consecutive mismatches. We consider the mismatched hybridization temperature within a range of 5 ( composite function)C to the fully matched reference temperature. RESULTS: We obtained the alignments of 19 PCR primers sets that were recently reported for the detection of SARS-CoV-2 and to 21665 SARS-CoV-2 genomes as well as 323 genomes of other viruses of the coronavirus family of which 10 are SARS-CoV-1. We find that many incompletely aligned primers become fully aligned to most of the SARS-CoV-2 when mismatches are considered. However, we also found that many cross-align to SARS-CoV-1 and non-SARS genomes. CONCLUSIONS: Some primer/probe sets only align substantially to most SARS-CoV-2 genomes if mismatches are taken into account. Unfortunately, by the same mechanism, almost 75% of these sets also align to some SARS-CoV-1 and non-SARS viruses. It is therefore recommended to consider mismatch hybridization for the design of primers whenever possible, especially to avoid undesired cross-reactivity. |*Base Pair Mismatch[MESH] |*Nucleic Acid Hybridization[MESH] |DNA Primers/*metabolism[MESH] |DNA Probes/*metabolism[MESH] |DNA, Viral/*metabolism[MESH] |Genome, Viral[MESH] |Polymerase Chain Reaction/*methods[MESH] |SARS-CoV-2/*genetics[MESH] |Sequence Alignment[MESH]Thermodynamic evaluation of the impact of DNA mismatches in PCR-type S(epmc).pdf DeepDyve Pubget Overpricing