| Literature DB >> 28845431 |
Anna Iannucci1, Daniela Marone1, Maria Anna Russo1, Pasquale De Vita1, Vito Miullo1, Pina Ferragonio1, Antonio Blanco2, Agata Gadaleta2, Anna Maria Mastrangelo1.
Abstract
A segregating population of 136 recombinant inbred lines derived from a cross between the durum wheat cv. "Simeto" and the T. dicoccum accession "Molise Colli" was grown in soil and evaluated for a number of shoot and root morphological traits. A total of 17 quantitative trait loci (QTL) were identified for shoot dry weight, number of culms, and plant height and for root dry weight, volume, length, surface area, and number of forks and tips, on chromosomes 1B, 2A, 3A, 4B, 5B, 6A, 6B, and 7B. LODs were 2.1 to 21.6, with percent of explained phenotypic variability between 0.07 and 52. Three QTL were mapped to chromosome 4B, one of which corresponds to the Rht-B1 locus and has a large impact on both shoot and root traits (LOD 21.6). Other QTL that have specific effects on root morphological traits were also identified. Moreover, meta-QTL analysis was performed to compare the QTL identified in the "Simeto" × "Molise Colli" segregating population with those described in previous studies in wheat, with three novel QTL defined. Due to the complexity of phenotyping for root traits, further studies will be helpful to validate these regions as targets for breeding programs for optimization of root function for field performance.Entities:
Year: 2017 PMID: 28845431 PMCID: PMC5563412 DOI: 10.1155/2017/6876393
Source DB: PubMed Journal: Int J Genomics ISSN: 2314-436X Impact factor: 2.326
Phenotypic variations among the parental lines and RILs from the “Simeto” × “Molise Colli” population for the shoot and root traits.
| Trait | Units | “Molise Colli” | “Simeto” | Mean | Min. | Max. | Range | ±SD | CV (%) | H | LSD0.05 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| DAS | Days | 23.30 | 22.80 | 24.70 | 19.80 | 34.00 | 14.30 | 2.70 | 11.00 | 0.35 | 4.22 |
| PH | cm | 60.90 | 39.40 | 53.40 | 36.20 | 71.20 | 35.00 | 8.10 | 15.20 | 0.76 | 6.09 |
| Shoots | N | 1.75 | 1.00 | 1.58 | 1.00 | 2.25 | 1.25 | 0.38 | 24.35 | 0.29 | 0.66 |
| SDW | mg | 212.90 | 162.60 | 221.70 | 121.00 | 380.90 | 260.00 | 56.50 | 25.50 | 0.63 | 0.06 |
| RDW | mg | 46.70 | 33.90 | 51.50 | 13.50 | 106.60 | 93.10 | 18.30 | 35.50 | 0.27 | 0.03 |
| L | cm | 1317.20 | 1096.20 | 1355.00 | 377.20 | 2439.40 | 2062.10 | 395.40 | 29.20 | 0.35 | 616.70 |
| SA | cm2 | 135.40 | 108.10 | 128.20 | 33.90 | 234.00 | 200.20 | 40.30 | 31.40 | 0.47 | 52.30 |
| D | mm | 0.33 | 0.31 | 0.30 | 0.23 | 0.38 | 0.15 | 0.03 | 9.10 | 0.08 | 0.07 |
| F | N | 4546.25 | 3270.00 | 5352.22 | 994.00 | 12172.75 | 11178.75 | 2352.46 | 43.95 | 0.34 | 3747.18 |
| V | cm3 | 1.12 | 0.86 | 0.99 | 0.25 | 2.22 | 1.96 | 0.36 | 36.50 | 0.45 | 0.48 |
| T | N | 1860.30 | 1513.80 | 1990.10 | 679.00 | 3303.80 | 2624.80 | 597.50 | 30.00 | 0.35 | 929.20 |
Min.: minimum value; max.: maximum value; SD: standard deviation; CV: coefficient of variation; H: broad sense heritability; LSD: least significant difference; DAS: days after sowing; PH: plant height; shoots: number of shoots per plant; SDW: shoot dry weight; RDW: root dry weight; L: length; SA: surface area; D: diameter; F: number of forks; V: volume; T: number of tips.
Figure 1Principal component analysis score plot of the first two principal components of the parental lines and RILs from the durum wheat “Simeto” × “Molise Colli” population for the root traits.
QTL detected in the “Simeto” × “Molise Colli” RIL populations for the evaluated traits.
| Chromosome region | QTL | Interval | Position (cM) | Peak marker | Chr. | Trait | LOD |
| Add. eff. |
|---|---|---|---|---|---|---|---|---|---|
| 1 | qF-1B | 10.4 | 0 | Excalibur_c71158_117 | 1B-1 | F | 3.6 | 0.12 | 697.21 |
| qC1B | 7.2 | 0 | Excalibur_c71158_117 | 1B-1 | C | 5.3 | 0.17 | 428.62 | |
| 2 | qT2-1B.1 | 14.1 | 36 | RAC875_c195_499 | 1B-1 | T2 | 2.6 | 0.09 | −1.21 |
| 3 | qT2-1B.2 | 11.8 | 72 | BS00110148_51 | 1B-1 | T2 | 3.2 | 0.1 | −1.26 |
| 4 | qT4-1B.1 | 10.2 | 50 | CAP11_c6406_104 | 1B-2 | T4 | 3.7 | 0.12 | 0.06 |
| 5 | qT2-2A.1 | 11.4 | 28 | BS00067159_51 | 2A-1 | V | 3.3 | 0.11 | 0.11 |
| 6 | qShoots-2A.1 | 7.2 | 2 | BS00062843_51 | 2A-3 | Shoots | 5.4 | 0.17 | −0.14 |
| 7 | qPH-3A.1 | 7.3 | 12 | TA015264–0958 | 3A-2 | PH | 5.3 | 0.17 | −2.49 |
| 8 | qT2-3A.1 | 10.1 | 12 | wsnp_BE426418A_Ta_2_1 | 3A-4 | T2 | 3.7 | 0.12 | −1.41 |
| 9 | qV-4B.1 | 8.7 | 28 | Tdurum_contig51688_681 | 4B-1 | V | 4.4 | 0.14 | −0.13 |
| qL3-4B.1 | 11.6 | 28 | Tdurum_contig51688_681 | 4B-1 | L3 | 3.2 | 0.1 | −2.59 | |
| qSA3-4B.1 | 11.8 | 28 | Tdurum_contig51688_681 | 4B-1 | SA3 | 3.2 | 0.1 | −0.92 | |
| qSA6-4B.1 | 11.6 | 28 | Tdurum_contig51688_681 | 4B-1 | SA6 | 3.2 | 0.1 | −0.08 | |
| qV3-4B.1 | 11.9 | 28 | Tdurum_contig51688_681 | 4B-1 | V3 | 3.1 | 0.1 | −0.03 | |
| qV6-4B.1 | 11.8 | 28 | Tdurum_contig51688_681 | 4B-1 | V6 | 3.2 | 0.1 | −0.01 | |
| qPH-4B.1 | 2.3 | 32 | Tdurum_contig51688_681 | 4B-1 | PH | 21.6 | 0.52 | −6.56 | |
| qSDW-4B.1 | 3.6 | 32 | Tdurum_contig51688_681 | 4B-1 | SDW | 12.1 | 0.34 | −0.04 | |
| qRDW-4B.1 | 6.7 | 32 | Tdurum_contig51688_681 | 4B-1 | RDW | 5.8 | 0.18 | −0.01 | |
| qSA-4B.1 | 5.4 | 32 | Tdurum_contig51688_681 | 4B-1 | SA | 7.4 | 0.22 | −20.5 | |
| qT-4B.1 | 8.9 | 32 | Tdurum_contig51688_681 | 4B-1 | T | 4.3 | 0.13 | −234.13 | |
| qV1-4B.1 | 5.7 | 32 | Tdurum_contig51688_681 | 4B-1 | V1 | 6.9 | 0.21 | −0.05 | |
| qT1-4B.1 | 8.9 | 32 | Tdurum_contig51688_681 | 4B-1 | T1 | 4.2 | 0.13 | −232.7 | |
| qL-4B.1 | 5.6 | 34 | Tdurum_contig63153_343 | 4B-1 | L | 7.1 | 0.22 | −200.86 | |
| qF-4B.1 | 7.1 | 34 | Tdurum_contig63153_343 | 4B-1 | F | 5.5 | 0.17 | −1064.59 | |
| qL1-4B.1 | 7.3 | 34 | Tdurum_contig63153_343 | 4B-1 | L1 | 5.3 | 0.17 | −158.61 | |
| qSA1-4B.1 | 6.1 | 34 | Tdurum_contig63153_343 | 4B-1 | SA1 | 6.5 | 0.2 | −9.58 | |
| qV2-4B.1 | 6.9 | 36 | Tdurum_contig63153_343 | 4B-1 | V2 | 5.6 | 0.17 | −0.07 | |
| qC-4B.1 | 6.5 | 38 | Tdurum_contig63153_343 | 4B-1 | C | 6 | 0.18 | −478.32 | |
| qL2-4B.1 | 6.5 | 38 | Tdurum_contig63153_343 | 4B-1 | L2 | 6 | 0.18 | −20.37 | |
| qSA2-4B.1 | 6.5 | 38 | Tdurum_contig63153_343 | 4B-1 | SA2 | 6 | 0.19 | −4.05 | |
| 10 | qV2-4B.2 | 9.1 | 94 | Tdurum_contig28920_296 | 4B-1 | V2 | 4.2 | 0.13 | −0.06 |
| qL2-4B.2 | 17.1 | 96 | Tdurum_contig4795_404 | 4B-1 | L2 | 2.2 | 0.07 | −29.3 | |
| qSA2-4B.2 | 16.6 | 96 | Tdurum_contig4795_404 | 4B-1 | SA2 | 2.2 | 0.07 | −5.91 | |
| qF-4B.1 | 17.9 | 104 | Tdurum_contig29112_483 | 4B-1 | F | 2.1 | 0.07 | −532.67 | |
| 11 | qL-4B.2 | 9.7 | 122 | Tdurum_contig56458_594 | 4B-1 | L | 3.9 | 0.12 | −125.98 |
| qSA-4B.2 | 7.8 | 122 | Tdurum_contig56458_594 | 4B-1 | SA | 4.9 | 0.15 | −14.14 | |
| qL1-4B.2 | 12.5 | 122 | Tdurum_contig56458_594 | 4B-1 | L1 | 3 | 0.1 | −97.79 | |
| qSA1-4B.2 | 8.1 | 122 | Tdurum_contig56458_594 | 4B-1 | SA1 | 4.7 | 0.15 | −7.07 | |
| qV1-4B.2 | 8 | 122 | Tdurum_contig56458_594 | 4B-1 | V1 | 4.8 | 0.15 | −0.04 | |
| 12 | qT7-5B.1 | 12.2 | 24 | Excalibur_c9969_98 | 5B-1 | T7 | 3.1 | 0.1 | −0.02 |
| 13 | qPH-6A.1 | 11 | 0 | TA001855–0472 | 6A-2 | PH | 3.4 | 0.11 | −1.89 |
| qSDW-6A.1 | 7.4 | 0 | TA001855–0472 | 6A-2 | SDW | 5.2 | 0.16 | −0.02 | |
| 14 | qT-6A.1 | 10.4 | 24 | Excalibur_rep_c103232_355 | 6A-2 | T | 3.6 | 0.12 | −180.92 |
| qL1-6A.1 | 13.3 | 24 | Excalibur_rep_c103232_355 | 6A-2 | L1 | 2.8 | 0.09 | −94.13 | |
| qSA1-6A.1 | 14.1 | 24 | Excalibur_rep_c103232_355 | 6A-2 | SA1 | 2.6 | 0.09 | −5.03 | |
| qT1-6A.1 | 10.4 | 24 | Excalibur_rep_c103232_355 | 6A-2 | T1 | 3.6 | 0.12 | −180.09 | |
| 15 | qT-6B.1 | 10.7 | 20 | Excalibur_c28771_400 | 6B-2 | T | 3.5 | 0.11 | −195.9 |
| qT1-6B.1 | 10.7 | 20 | Excalibur_c28771_400 | 6B-2 | T1 | 3.5 | 0.11 | −194.99 | |
| 16 | qL4-6B.1 | 13.2 | 98 | Kukri_c5168_162 | 6B-2 | L4 | 2.8 | 0.09 | 0.55 |
| qSA4-6B.1 | 13 | 98 | Kukri_c5168_162 | 6B-2 | SA4 | 2.8 | 0.09 | 0.29 | |
| qSA6-6B.1 | 13.3 | 98 | Kukri_c5168_162 | 6B-2 | SA6 | 2.8 | 0.09 | 0.07 | |
| qV4-6B.1 | 13 | 98 | Kukri_c5168_162 | 6B-2 | V4 | 2.9 | 0.09 | 0.01 | |
| qV6-6B.1 | 13.5 | 98 | Kukri_c5168_162 | 6B-2 | V6 | 2.8 | 0.09 | 0.01 | |
| qL5-6B.1 | 10.2 | 100 | CAP7_c3697_87 | 6B-2 | L5 | 3.7 | 0.12 | 0.23 | |
| qL6-6B.1 | 13.5 | 100 | CAP7_c3697_87 | 6B-2 | L6 | 2.8 | 0.09 | 0.08 | |
| qSA5-6B.1 | 10.2 | 100 | CAP7_c3697_87 | 6B-2 | SA5 | 3.7 | 0.12 | 0.15 | |
| qV5-6B.1 | 10.1 | 100 | CAP7_c3697_87 | 6B-2 | V5 | 3.7 | 0.12 | 0.01 | |
| 17 | qL9-7B.1 | 11.3 | 14 | RAC875_c23521_589 | 7B-1 | L9 | 3.3 | 0.11 | 0.01 |
| qSA9-7B.1 | 11.3 | 14 | RAC875_c23521_589 | 7B-1 | SA9 | 3.3 | 0.11 | 0.01 | |
| qV9-7B.1 | 11.1 | 14 | RAC875_c23521_589 | 7B-1 | V9 | 3.4 | 0.11 | 0.001 |
Chr.: chromosome; LOD: log10 odds ratio; Add. eff.: additive effects.
Figure 2Integrated map in wheat for the QTL and the MQTL identified through the meta-analysis for the root morphological traits. QTL from literature are not indicated with the QTL name reported in the correspondent study but with a nomenclature in which the trait and the reference are reported, as indicated in Table S1, for clarity. The same for the QTL identified in the present study, which are reported with the acronym “SMC” (i.e., “Simeto” × “Molise Colli” population). The genetic position of the Rht-B1 locus on chromosome 4B is also reported. Vertical lines on the right of the chromosomes indicate the confidence intervals, and horizontal lines indicate the peak marker positions, where the length represents the percentage of variability explained by the QTL. The MQTL are in bold, while the single QTL are in gray. The names of the QTL grouped in the same MQTL are in the same color.
Characteristics of the MQTL (in bold) and single QTL (in italics) identified in the meta-analysis in the present study.
| Chr. | MQTL/single QTL | AIC | Position (cM) | Mean initial CI (cM) | MQTL/single QTL CI (cM) | Flanking markers | Number of involved QTL |
|---|---|---|---|---|---|---|---|
| 1B |
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| 39.72 | 44.5 | 6.3 | 1.4 | wPt-7529-Xgwm413 | 3 | |
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| 62 | 11.3 | 4.8 | P4133–170-RAC875_c4377_524 | 4 | ||
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| 20.14 | 96.1 | 8 | 4.4 | BS00072289_51-RFL_Contig2826_548 | 2 | |
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| 2A |
| 75.22 | 40.5 | 27.2 | 11.7 | Tdurum_contig74742_224-wPt-5839 | 4 |
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| 106.6 | 25.8 | 0.5 | Xwmc455-Xgwm372 | 3 | ||
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| 20.4 |
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| 3A |
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| 9.39 | 65.8 | 9.9 | 6.9 | CAP8_c1702_71-RAC875_c10628_941 | 2 | |
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| 31.94 | 94.9 | 12.5 | 1.6 | wPt-6891-Xwmc489c | 4 | |
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| 107.3 | 10.9 | 4.5 | wsnp_Ex_c4923_8767234-Excalibur_c24402_471 | 2 | ||
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| 52.31 | 140.3 | 5.9 | 2.8 | Excalibur_c3429_652b-wsnp_Ku_c10468_17301042a | 2 | |
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| 147.8 | 7.4 | 2 | Xwmc215a-KukBi_c6645_570 | 3 | ||
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| 156.5 | 11.3 | 3.9 | Tdurum_contig55841_351a-Kukri_c2596_146 | 2 | ||
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| 4B |
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| 40.73 | 48.1 | 16.1 | 2.6 | Tdurum_contig93615_540-BS00081631_51 | 3 | |
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| 55.4 | 12.5 | 7.7 | Xwmc617a-BS00065688_51 | 2 | ||
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| 84.94 | 63.7 | 5.8 | 3.1 | kukri_c8973_1986-Tdurum_contig42307_2647 | 2 | |
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| 69.6 | 3.9 | 1.1 | Tdurum_contig92997_676-BS00022177_51b | 2 | ||
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| 73.2 | 7.2 | 1.2 | BobWhite_c12067_311-Xgwm375 | 8 | ||
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| 88.3 | 17.5 | 9.2 | Tdurum_contig46788_529-BS00004727_51 | 2 | ||
| 5B |
| 11.44 | 3.9 | 16.2 | 9.6 | tplb0060p09_735-wPt-0033 | 2 |
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| 12.43 | 36.5 | 10.7 | 3.3 | Xwmc274b-RAC875_c60836_741a | 2 | |
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| 9.94 | 123.8 | 13.7 | 9 | Tdurum_contig29967_456-wPt-1482b | 2 | |
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| 6A |
| 96 | 24.9 | 27.7 | 11.2 | BS00082191_51-Ex_c68796_2057 | 3 |
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| 64.09 | 56.5 | 7.7 | 2.8 | IAAV4117-BS00063990_51 | 4 | |
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| 62.5 | 7.7 | 2.9 | Xpsr312b-RAC875_c64560_111a | 2 | ||
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| 69.8 | 7.1 | 5 | Xwmc807-Xbarc113 | 2 | ||
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| 74.71 | 97.1 | 11.2 | 7.9 | CAP7_c9578_263-Tdurum_contig92441_354 | 2 | |
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| 114.2 | 16.2 | 7.6 | wsnp_Ex_c20457_29526403-BobWhite_c5872_589 | 2 | ||
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| 125.1 | 12 | 4 | Xpsr546a-wPt-9976 | 5 | ||
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| 6B |
| 23.9 | 15.2 |
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| 20.69 | 69.5 | 7.8 | 4.1 | Xwmc265c-BS00067644_51 | 3 | |
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| 6.79 | 80.6 | 4 | 2.7 | Excalibur_rep_c94584_98-Tdurum_contig47269_241 | 2 | |
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| 15.79 | 100.3 | 8.8 | 6 | wsnp_Ex_c18632_27501724-BS00063595_51 | 2 | |
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| 7B |
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| 27.69 | 73.7 | 13.5 | 8 | Xpsr103-GENE-4888_150 | 2 | |
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| 93.3 | 43.3 | 30.5 | TC69176-Excalibur_c33267_263 | 2 | ||
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| 25.49 | 162.2 | 11.5 | 8 | Xmag1933-Excalibur_rep_c110429_536 | 2 |
Chr.: chromosome; AIC: Akaike information criterion; CI: confidence interval; cM: centimorgan; SMC: “Simeto” × “Molise Colli” population.
Details of all of the traits for which a QTL was identified in the present study.
| Trait | Unit | Abbreviation |
|---|---|---|
| Crossing number | — | C |
| Shoot number per plant | — | Shoots |
| Plant height | cm | PH |
| Shoot dry weight | g | SDW |
| Root dry weight | g | RDW |
| Length | cm | L |
| Length, diameter class 0.0 < d ≤ 0.5 mm | cm | L1 |
| Length, diameter class 0.5 < d ≤ 1.0 mm | cm | L2 |
| Length, diameter class 1.0 < d ≤ 1.5 mm | cm | L3 |
| Length, diameter class 1.5 < d ≤ 2.0 mm | cm | L4 |
| Length, diameter class 2.0 < d ≤ 2.5 mm | cm | L5 |
| Length, diameter class 2.5 < d ≤ 3.0 mm | cm | L6 |
| Length, diameter class 4.0 < d ≤ 4.5 mm | cm | L9 |
| Surface area | cm2 | SA |
| Surface area, diameter class 0.0 < d ≤ 0.5 mm | cm2 | SA1 |
| Surface area, diameter class 0.5 < d ≤ 1.0 mm | cm2 | SA2 |
| Surface area, diameter class 1.0 < d ≤ 1.5 mm | cm2 | SA3 |
| Surface area, diameter class 1.5 < d ≤ 2.0 mm | cm2 | SA4 |
| Surface area, diameter class 2.0 < d ≤ 2.5 mm | cm2 | SA5 |
| Surface area, diameter class 2.5 < d ≤ 3.0 mm | cm2 | SA6 |
| Surface area, diameter class 4.0 < d ≤ 4.5 mm | cm2 | SA9 |
| Volume | cm3 | V |
| Volume, diameter class 0.0 < d ≤ 0.5 mm | cm3 | V1 |
| Volume, diameter class 0.5 < d ≤ 1.0 mm | cm3 | V2 |
| Volume, diameter class 1.0 < d ≤ 1.5 mm | cm3 | V3 |
| Volume, diameter class 1.5 < d ≤ 2.0 mm | cm3 | V4 |
| Volume, diameter class 2.0 < d ≤ 2.5 mm | cm3 | V5 |
| Volume, diameter class 2.5 < d ≤ 3.0 mm | cm3 | V6 |
| Volume, diameter class 4.0 < d ≤ 4.5 mm | cm3 | V9 |
| Number of tips | — | T |
| Number of tips, diameter class 0.0 < d ≤ 0.5 mm | — | T1 |
| Number of tips, diameter class 0.5 < d ≤ 1.0 mm | — | T2 |
| Number of tips, diameter class 1.5 < d ≤ 2.0 mm | — | T4 |
| Number of tips, diameter class 2.0 < d ≤ 2.5 mm | — | T5 |
| Number of tips, diameter class 2.5 < d ≤ 3.0 mm | — | T6 |
| Number of tips, diameter class 3.0 < d ≤ 3.5 mm | — | T7 |