| Literature DB >> 33281469 |
Liyan Zhang1,2,3, Jing Zhang4, Puqing Song2, Shigang Liu2, Pan Liu1, Cheng Liu1,2, Longshan Lin1,2, Yuan Li1,2.
Abstract
Decapterus macarellus and D. macrosoma are economically important pelagic fish species that are widely distributed in tropical and subtropical seas. The two species are often mistakenly identified due to their morphological similarities as described in the Chinese literature on fish identification. In this study, D. macarellus and D. macrosoma samples were collected in the Eastern Indian Ocean and the South China Sea and reidentified using morphological and DNA barcoding techniques. The characteristics that distinguish the two species primarily include the scute coverage of the straight portion of the lateral line (the most indicative characteristic for classification), the shape of the predorsal scaled area and its location relative to the middle axis of the eye, and the shapes of the posterior margin of the maxilla and the posterior margin of the operculum. The results revealed a large number of misidentified sequences among the homologous cytochrome oxidase (COI) sequences of the two species in the NCBI database and that the genus Decapterus may include cryptic species. In terms of genetic structure, the Sundaland has not blocked genetic exchange between D. macarellus populations in the South China Sea and the Eastern Indian Ocean, giving rise to a high level of genetic diversity. In this study, we made corrections to the Chinese classification standards for D. macarellus and D. macrosoma and the erroneous reference sequences in the NCBI database, thereby providing accurate reference points for the future exploration of cryptic species in the genus Decapterus. Liyan Zhang, Jing Zhang, Puqing Song, Shigang Liu, Pan Liu, Cheng Liu, Longshan Lin, Yuan Li.Entities:
Keywords: DNA barcoding; genetic diversity; mackerel; morphological characteristics; phylogeny; scad; species identification
Year: 2020 PMID: 33281469 PMCID: PMC7688621 DOI: 10.3897/zookeys.995.58092
Source DB: PubMed Journal: Zookeys ISSN: 1313-2970 Impact factor: 1.546
Figure 1.(upper) and (lower).
Information on haplotype, accession numbers, sequence similarity for the samples and sequences in this study.
| Haplotype | Number | Cited dataset from GenBank | Sequences in this study | |||||
|---|---|---|---|---|---|---|---|---|
| Accession numbers | Scientific species name | sequence similarity (%) | Corrected species name | ID | Scientific species name | |||
| Group 1 | Hap_5 | 63 |
| 100 | ✓ | B1, B2, B4, B5, B6, B7, B9, B10, B13, B14, B16, B17, B18, B19, B20 |
| |
| Hap_6 | 6 |
| 100 | ✓ | B3, B11, B12 |
| ||
| Hap_7 | 2 |
|
| 100 | ✓ | B8 |
| |
| Hap_8 | 1 | 99.8 | B15 |
| ||||
| Hap_9 | 1 | 99.8 | B21 |
| ||||
| Hap_20 | 1 |
|
| 100 | ✓ | |||
| Hap_21 | 1 |
|
| 100 | ✓ | |||
| Hap_24 | 1 |
|
| 100 | ✓ | |||
| Hap_28 | 2 |
| 100 | ✓ | ||||
| Hap_32 | 1 |
|
| 100 | ✓ | |||
| Hap_33 | 4 |
| 100 | ✓ | ||||
| Hap_34 | 1 |
|
| 100 | ✓ | |||
| Hap_35 | 1 |
|
| 100 | ✓ | |||
| Hap_38 | 2 |
|
| 100 | ✓ | 7HYS |
| |
| Hap_41 | 1 |
|
| 100 | ✓ | |||
| Hap_44 | 2 |
| 100 | ✓ | ||||
| Hap_45 | 2 |
| 100 | ✓ | ||||
| Hap_51 | 1 |
|
| 100 | ✓ | |||
| Hap_54 | 1 |
|
| 100 | ✓ | |||
| Hap_55 | 1 |
|
| 100 | ✓ | |||
| Hap_56 | 1 |
|
| 100 | ✓ | |||
| Hap_59 | 1 |
|
| 100 | ✓ | |||
| Group 2 | Hap_27 | 1 |
|
| 94.2 | |||
| Group 3 | Hap_63 | 1 |
|
| 96.4 | |||
| Group 4 | Hap_1 | 54 |
| 100 | ✓ | A15, A16, A17, A18, A19, A23, A24, C1, C5, C6, C7, C8, C9, C13, C17, C20, C21, C23, 1CTYS, A4, A10, A11, A12 |
| |
| Group 4 | ||||||||
| Group 4 | Hap_2 | 1 | 99.8 | A20 |
| |||
| Hap_3 | 8 |
| 100 | ✓ | A14 A21 C15 |
| ||
| Hap_4 | 1 | 99.8 | A22 |
| ||||
| Hap_10 | 1 | 99.8 | C2 |
| ||||
| Hap_11 | 1 | 99.8 | C3 |
| ||||
| Hap_12 | 1 | 99.8 | C4 |
| ||||
| Hap_13 | 1 | 99.8 | C10 |
| ||||
| Hap_14 | 2 |
|
| 100 | ✓ | C11 |
| |
| Hap_15 | 2 | 99.8 | C12 C18 |
| ||||
| Hap_16 | 3 |
|
| 100 | ✓ | C14 C22 |
| |
| Hap_17 | 1 | 99.8 | C16 |
| ||||
| Hap_18 | 1 | 99.8 | C19 |
| ||||
| Hap_19 | 3 |
| 100 | ✓ | C24 |
| ||
| Hap_23 | 1 |
|
| 100 | ✓ | |||
| Hap_25 | 1 |
|
| 100 | ✓ | |||
| Hap_26 | 1 |
|
| 100 | ✓ | |||
| Hap_36 | 1 |
|
| 100 | ✓ | |||
| Hap_42 | 3 |
| 100 | ✓ | A9 |
| ||
| Hap_43 | 2 |
| 100 | ✓ | ||||
| Hap_46 | 1 |
|
| 100 | ✓ | |||
| Hap_47 | 1 |
|
| 100 | ✓ | |||
| Hap_48 | 1 |
|
| 100 | ✓ | |||
| Hap_49 | 1 |
|
| 100 | ✓ | |||
| Hap_50 | 2 |
| 100 | ✓ | ||||
| Hap_52 | 2 |
| 100 | ✓ | ||||
| Hap_53 | 1 |
|
| 100 | ✓ | |||
| Hap_57 | 1 |
|
| 100 | ✓ | |||
| Hap_58 | 1 |
|
| 100 | ✓ | |||
| Hap_60 | 1 |
|
| 100 | ✓ | |||
| Hap_61 | 1 |
|
| 100 | ✓ | |||
| Hap_62 | 1 |
|
| 100 | ✓ | |||
| Hap_64 | 1 | 99.8 | 17CTYS |
| ||||
| Hap_65 | 1 | 99.8 | A1 |
| ||||
| Hap_66 | 1 | 99.8 | A2 |
| ||||
| Hap_67 | 1 | 99.6 | A3 |
| ||||
| Hap_68 | 1 | 99.8 | A5 |
| ||||
| Hap_69 | 1 | 99.8 | A6 |
| ||||
| Hap_70 | 1 | 99.8 | A7 |
| ||||
| Hap_71 | 1 | 99.8 | A8 |
| ||||
| Hap_72 | 1 | 99.8 | A13 |
| ||||
| Group 5 | Hap_40 | 2 |
| 100 |
| |||
| Group 6 | Hap_31 | 1 |
|
| 100 |
| ||
| Hap_37 | 6 |
| 100 |
|
|
| ||
| Group 7 | Hap_39 | 1 | 100 |
|
| |||
| Group 8 | Hap_22 | 1 |
|
| 100 |
| ||
| Hap_29 | 2 |
| 100 |
| ||||
| Hap_30 | 1 |
|
| 100 |
| |||
Comparison of countable and measurable characteristics of and .
| Parameters |
|
| |
|---|---|---|---|
| South China Sea ( | South China Sea ( | Eastern Indian Ocean ( | |
|
| VII~VIII, I-31~35+1 | VIII, I-30~35+1 | VII~VIII, I-30~36+1 |
|
| 20~23 | 20~23 | 20~24 |
|
| I-5~6 | I-5~6 | I-5~6 |
|
| II, I-26~30+1 | II, I-26~30+1 | II, I-27~30+1 |
|
| 15~18 | 16~18 | 16~17 |
|
| 24~38 | 25~36 | 24~38 |
|
| 23~26 | 23~25 | 24~26 |
|
| 9.8~24.4 | 7.1~23.9 | 17.2~27.7 |
|
| 92.1~119.3 | 20.6~114.3 | 108.2~127.3 |
|
| 104.3~128.4 | 29.3~125.1 | 114.5~134.6 |
Figure 2.Minimum spanning tree for and based on mitochondrial COI sequences.
Figure 3.Neighbor-joining tree of detected species based on mitochondrial COI sequences.
Genetic distance of COI gene among (below the diagonal) and within (on the diagonal) groups, and the divergence time between groups (above the diagonal).
| Group 1 | Group 2 | Group 3 | Group 4 | Group 5 | Group 6 | Group 7 | Group 8 | |
|---|---|---|---|---|---|---|---|---|
|
| 0.005 | 5.92 | 6.33 | 5.25 | 7.17 | 7.67 | 10.25 | 14.75 |
|
| 0.071 | 0 | 5.67 | 5.17 | 8.17 | 7.42 | 9.92 | 15.92 |
|
| 0.076 | 0.068 | 0 | 3.00 | 7.92 | 7.75 | 10.08 |
|
|
| 0.063 | 0.062 | 0.036 | 0.007 | 7.50 | 7.58 | 11.58 | 16.00 |
|
| 0.086 | 0.098 | 0.095 | 0.09 | 0 |
| 7.75 | 14.50 |
|
| 0.092 | 0.089 | 0.093 | 0.091 |
| 0.002 | 8.17 | 14.67 |
|
| 0.123 | 0.119 | 0.121 | 0.139 | 0.093 | 0.098 | 0 | 12.33 |
|
| 0.177 | 0.191 |
| 0.192 | 0.174 | 0.176 | 0.148 | 0.009 |
Unit of divergence time: millions of years.
Comparison of major morphological diagnostic characteristics of and .
|
|
| |
|---|---|---|
|
| posterior end, approximately 1/2 | majority in the rear, approximately 3/4 |
|
| the highest scute is approximately half the eye diameter | no particular external characteristics |
|
| reaching or extending past | not reaching |
|
| “∩” | “m” |
|
| convex and round | truncated |
|
| oblique | straight |