Volume 27, Number 2—February 2021
Dispatch
SARS-CoV-2 Transmission between Mink (Neovison vison) and Humans, Denmark
Table 2
Location of nt differences identified in genome sequences of selected severe acute respiratory syndrome coronavirus 2 samples from mink and humans in Denmark, June–July 2020, compared with Wuhan and clade 20B reference sequences*
| Virus sample | Genomic location and nt position |
||||||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 5´ UTR |
ORF1a |
ORF1b |
Spike |
ORF3a |
Nucleoprotein |
||||||||||||
| 241 | 3037 | 5421 | 9534 | 14408 | 15656 | 22920 | 23403 | 25936 | 28881 | 28882 | 28883 | ||||||
| NC045512 (Wuhan) | C | C | A | C | C | C | A | A | C | G | G | G | |||||
| Humans in Jutland (to 2020 Jun 10)† | T | T | A | C | T | C | A | G | C | G | G | G | |||||
| EPI_ISL_455326 20B | T | T | A | C | T | C | A | G | C | A | A | C | |||||
| Index case | T | T | A | C | T | T | A | G | ND | A | A | C | |||||
| Mink_AD4_ Farm1 | T | T | G | C | T | T | T | G | T | A | A | C | |||||
| Mink_AL3_ Farm1 | T | T | A | C | T | T | A | G | T | A | A | C | |||||
| Mink_KL14_ Farm1 | T | T | A | C | T | T | A | G | T | A | A | C | |||||
| Mink_KL11_ Farm1 | T | T | A | C | T | T | A | G | T | A | A | C | |||||
| Mink_AD3_ Farm1 | T | T | G | C | T | T | T | G | T | A | A | C | |||||
| Mink_AD6_ Farm1 | T | T | A | C | T | T | T | G | T | A | A | C | |||||
| Mink_AL64_ Farm1 | T | T | A | C | T | T | A | G | T | A | A | C | |||||
| Mink_AL25_ Farm1 | T | T | A | C | T | T | T | G | T | A | A | C | |||||
| Mink_AD38_ Farm2 | T | T | A | C | T | T | T | G | T | A | A | C | |||||
| Mink_M1-M47_Farm2‡ | T | T | A | C | T | T | T | G | T | A | A | C | |||||
| Mink_AD37_ Farm3 | T | T | A | C | T | T | T | G | T | A | A | C | |||||
| Mink_AD40_ Farm3 | T | T | A | C | T | T | T | G | T | A | A | C | |||||
| Mink_AL35_ Farm3 | T | T | A | C | T | T | T | G | T | A | A | C | |||||
| H1–H7 + H9 | T | T | A | C | T | T | T | G | T | A | A | C | |||||
| H8 | T | T | A | T | T | T | T | G | T | A | A | C | |||||
| In NB01 (NL)§ | T | T | A | C | T | C | A | G | C | G | G | G | |||||
| In NB02 (NL)§ | C | C | A | C | C | C | T>A# | A | C | G | G | G | |||||
| In NB03 (NL)§ | T | T | A | C | T | C | A | G | T | G | G | G | |||||
| In NB04 (NL)§ | T | T | A | C | T | C | A | G | C | G | G | G | |||||
| Humans in Jutland (to 2020 Jul 1) † | T | T | A | C | T | C>T | A>T | G | C>T | G>A | G>A | G>C | |||||
| Encoded amino acid change¶ | NA | NA | I1719 V | T3083 I | P314 L | T730 I | Y453F | D614 G | H182 Y | R203 K | R203 K | G204 R | |||||
*Red text indicates nt differences from the Wuhan reference strain; pink shading indicates nt changes detected in mink and in human contacts (H1–H9) that differ from the clade 20 B and index case; gray shading indicates a reference clade 20B sequence and the human index case sequence. NA, not applicable, as nt change in the noncoding region; ND, not determined; NL, the Netherlands; ORF, open reading frame. † The proportions of each nt present at each of these positions in human sequences in Jutland are shown in Appendix Table 1 (https://wwwnc.cdc.gov/EID/article/27/2/20-3794-App1.pdf). ‡nts present in farm 2 sequences obtained from throat swab specimens on June 22, 2020 (derived from 20 adult mink and 27 kits). §The mink sequences from the Netherlands also differ at other locations compared with the Wuhan sequence (5). ¶Encoded amino acid substitutions (with residue number in each protein) compared to Wuhan reference strain are indicated using the single letter code. #T in 5 of 6 sequences from farm NB02 (5).