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Xiphinema japonicum n. sp. (Nematoda: Longidorinae) from the Rhizosphere of Japanese Podocarpus macrophyllus (Thunb.), a Cryptic Species Related to Xiphinema bakeri Williams, 1961


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FIG. 1.

Xiphinema japonicum n. sp. A. Female pharyngeal region; B, C. Lip region; D. Anterior genital branch; E–H: Entire body of female, 4th, 3rd, and 2nd stage juveniles; and I–L: Tail of female, 4th, 3rd, and 2nd stage juveniles (Scale bars = A–D, I–L 40 μm; E–H 400 μm).
Xiphinema japonicum n. sp. A. Female pharyngeal region; B, C. Lip region; D. Anterior genital branch; E–H: Entire body of female, 4th, 3rd, and 2nd stage juveniles; and I–L: Tail of female, 4th, 3rd, and 2nd stage juveniles (Scale bars = A–D, I–L 40 μm; E–H 400 μm).

FIG. 2.

Xiphinema japonicum n. sp. A. Female pharyngeal region; B–D. Lip region (arrows showing anterior body pores); E. Genital branches; F, G. Vulval region; and H–J. Tail of female (Scale bars = 10 μm).
Xiphinema japonicum n. sp. A. Female pharyngeal region; B–D. Lip region (arrows showing anterior body pores); E. Genital branches; F, G. Vulval region; and H–J. Tail of female (Scale bars = 10 μm).

FIG. 3.

Xiphinema japonicum n. sp. A–C. Lip region of 2nd, 3rd, and 4th stages juveniles and D–F. Tail region of 2nd, 3rd, and 4th stages juveniles (Scale bars = 10 μm).
Xiphinema japonicum n. sp. A–C. Lip region of 2nd, 3rd, and 4th stages juveniles and D–F. Tail region of 2nd, 3rd, and 4th stages juveniles (Scale bars = 10 μm).

FIG. 4.

Bayesian consensus tree of Xiphinema japonicum n. sp. inferred from 18S under GTR+I+G model (–lnL = 3,332.0762; AIC = 6,682.1523; freqA = 0.1821; freqC = 0.209; freqG = 0.3285; freqT = 0.2804; R(a) = 1.4406; R(b) = 5.2581; R(c) = 2.6656; R(d) = 0.7382; R(e) = 5.2581; R(f) = 1; Pinva = 0.2316; and Shape = 0.4544). Posterior probability values exceeding 50% are given on appropriate clades.
Bayesian consensus tree of Xiphinema japonicum n. sp. inferred from 18S under GTR+I+G model (–lnL = 3,332.0762; AIC = 6,682.1523; freqA = 0.1821; freqC = 0.209; freqG = 0.3285; freqT = 0.2804; R(a) = 1.4406; R(b) = 5.2581; R(c) = 2.6656; R(d) = 0.7382; R(e) = 5.2581; R(f) = 1; Pinva = 0.2316; and Shape = 0.4544). Posterior probability values exceeding 50% are given on appropriate clades.

FIG. 5.

Bayesian consensus tree of Xiphinema japonicum n. sp. inferred from 28S D2/D3 under GTR+I+G model (–lnL = 1,0912.0693; AIC = 21,844.1387; freqA = 0.2463; freqC = 0.2277; freqG = 0.2969; freqT = 0.2291; R(a) = 0.9039; R(b) = 2.4909; R(c) = 2.4092; R(d) = 0.4557; R(e) = 3.9274; R(f) = 1; Pinva = 0.3185; Shape = 0.782). Posterior probability values exceeding 50% are given on appropriate clades.
Bayesian consensus tree of Xiphinema japonicum n. sp. inferred from 28S D2/D3 under GTR+I+G model (–lnL = 1,0912.0693; AIC = 21,844.1387; freqA = 0.2463; freqC = 0.2277; freqG = 0.2969; freqT = 0.2291; R(a) = 0.9039; R(b) = 2.4909; R(c) = 2.4092; R(d) = 0.4557; R(e) = 3.9274; R(f) = 1; Pinva = 0.3185; Shape = 0.782). Posterior probability values exceeding 50% are given on appropriate clades.

FIG. 6.

Bayesian consensus tree of Xiphinema japonicum n. sp. inferred from ITS1 under GTR+I+G model (–lnL = 28,666.7617; AIC = 57,353.5234; freqA = 0.2666; freqC = 0.2103; freqG = 0.2581; freqT = 0.2649; R(a) = 0.8907; R(b) = 2.1925; R(c) = 1.3381; R(d) = 0.8292; R(e) = 2.6455; R(f) = 1; Pinva = 0.0888; and Shape = 2.1461). Posterior probability values exceeding 50% are given on appropriate clades.
Bayesian consensus tree of Xiphinema japonicum n. sp. inferred from ITS1 under GTR+I+G model (–lnL = 28,666.7617; AIC = 57,353.5234; freqA = 0.2666; freqC = 0.2103; freqG = 0.2581; freqT = 0.2649; R(a) = 0.8907; R(b) = 2.1925; R(c) = 1.3381; R(d) = 0.8292; R(e) = 2.6455; R(f) = 1; Pinva = 0.0888; and Shape = 2.1461). Posterior probability values exceeding 50% are given on appropriate clades.

FIG. 7.

Bayesian consensus tree of Xiphinema japonicum n. sp. inferred from COXI under GTR+I+G model (–lnL = 13,814.9082; AIC = 27,649.8164; freqA = 0.3355; freqC = 0.1459; freqG = 0.1281; freqT = 0.3905; R(a) = 0.796; R(b) = 9.4411; R(c) = 0.4133; R(d) = 1.205; R(e) = 12.7477; R(f) = 1; Pinva = 0.3913; and Shape = 0.5091). Posterior probability values exceeding 50% are given on appropriate clades.
Bayesian consensus tree of Xiphinema japonicum n. sp. inferred from COXI under GTR+I+G model (–lnL = 13,814.9082; AIC = 27,649.8164; freqA = 0.3355; freqC = 0.1459; freqG = 0.1281; freqT = 0.3905; R(a) = 0.796; R(b) = 9.4411; R(c) = 0.4133; R(d) = 1.205; R(e) = 12.7477; R(f) = 1; Pinva = 0.3913; and Shape = 0.5091). Posterior probability values exceeding 50% are given on appropriate clades.

Morphometrics data for Xiphinema japonicum n. sp. (measurements μm; mean ± s.d. (range) for paratype).

Character/ratios Female J2 J3 J4
Holotype Paratypes Paratypes Paratypes Paratypes
n 1 9 2 3 7
L 3,289 3,272 ± 198.4 (2,965–3,757) 1,217 ± 8.9 (1,211–1,224) 1,846 ± 46.4 (1,779–1,889) 2,509.6 ± 224.6 (2,262–2,813)
a 72.2 67.1 ± 6.2 (56.2–75.8) 39.2 ± 4.3 (36.1–42.2) 47.2 ± 5.9 (42.6–53.8) 54.2 ± 5.4 (45.9–62.5)
b 7.0 7.2 ± 0.4 (6.6–7.7) 4.4 ± 0.07 (4.3–4.4) 5.0 ± 0.4 (4.6–5.4) 5.7 ± 0.6 (4.8–6.6)
c 62.1 62 ± 3.6 (55–69) 18.0 ± 0.5 (17.6–18.3) 26.0 ± 1.6 (24.6–27.8) 41.8 ± 3.8 (38.5–48.4)
c′ 1.5 1.5 ± 0.1 (1.3–1.7) 3.3 ± 0.4 (3.0–3.5) 2.8 ± 0.3 (2.5–3.1) 1.9 ± 0.2 (1.7–2.2)
V 31.1 32.2 ± 1.4 (30.5–35.3) - - -
Lip diam. 12.1 12.0 ± 0.5 (10.6–12.4) 8.3 ± 0.3 (8.1–8.5) 9.7 ± 0.8 (9.0–10.6) 10.7 ± 0.2 (10.4–10.9)
Lip height 4.5 4.7 ± 0.6 (4.0–5.6) 3.3 ± 0.07 (3.2–3.3) 4.3 ± 0.1 (4.3–4.4) 4.7 ± 0.3 (4.3–5.0)
Odontostyle 126.1 122.6 ± 2.3 (119–126) 61.1 ± 1.5 (60.0–62.1) 84.0 ± 1.9 (82.6–86.0) 104.3 ± 3.5 (101.2–109.2)
Odontophore 74.5 72.6 ± 3.5 (64.4–77) 44.6 ± 1.0 (43.9–45.3) 51.5 ± 0.8 (50.8–52.3) 62.9 ± 3.5 (56.4–66.2)
Total stylet 201.4 195.2 ± 3.6 (190–201.4) 106 ± 0.1 (105.3–106.7) 135.3 ± 2.6 (133.1–138.3) 167.3 ± 3.0 (164.5–172.6)
Replacement odontostyle   - 86.1 ± 3.5 (83.6–88.6) 105.3 ± 3.2 (101.8–108.1) 123.5 ± 4.5 (117.4–128.3)
Distance from anterior end to guide ring 121.0 115.4 ± 6.2 (100.5–121.7) 57.6 ± 1.0 (56.9–58.3) 74.7 ± 7.4 (67.0–81.7) 89.3 ± 7.7 (78.9–99.6)
Pharynx 468.8 452.3 ± 13.5 (431–469.6) 278.7 ± 1.6 (277.5–279.8) 370.3 ± 20.8 (348.6–390) 442.8 ± 28.6 (414.0–489.8)
Pharyngeal bulb length 109.1 104.5 ± 3.4 (100.1–110.2) 62.9 ± 7.1 (57.8–67.9) 83.4 ± 7.1 (75.4–88.6) 91.9 ± 12.4 (74.4–104.5)
Pharyngeal bulb diam. 25.1 24.1 ± 1.7 (22.1–27.7) 18.2 ± 0.5 (17.8–18.5) 23.0 ± 0.7 (22.2–23.5) 24.0 ± 2.4 (20.4–26.8)
Body diam. 45.5 49.2 ± 6.2 (41–58.2) 31.3 ± 3.2 (29–33.6) 39.8 ± 4.2 (35.1–43.3) 46.7 ± 5.1 (37.7–51.4)
Body diam. at guide ring 37.5 38 ± 1.2 (36.4–40.3) 20.4 ± 1.1 (19.6–21.2) 29.6 ± 3.3 (26.7–33.1) 35.5 ± 3.0 (32.2–39.5)
Body diam. at the base of pharynx 46.1 46.3 ± 3.7 (40–51.4) 30.3 ± 1.8 (29–31.5) 37.2 ± 4.2 (32.4–40.3) 43.8 ± 4.1 (37–47.8)
Body diam. at vulva 48.6 49.3 ± 5.1 (42.2–55.6) - - -
Anterior genital branch length 328.0 328.5 ± 24.7 (286–363.0) - - -
Posterior genital branch length 335.0 380.6 ± 62.8 (299–497) - - -
Distance from anterior end to vulva 1,024 1,054.2 ± 70.1 (938–1,157) - - -
Anal diam. 34.6 34.6 ± 2.7 (31.6–41.6) 20.9 ± 2.7 (19–22.8) 26.7 ± 3.4 (24.5–30.7) 31.2 ± 2.3 (28.2–33.8)
Tail 52.9 53.0 ± 2.0 (47.0–56.9) 67.9 ± 1.3 (67–68.8) 71.2 ± 6.1 (64.7–76.7) 58.8 ± 4.9 (55.7–65.0)
Hyaline tail part 16.1 19.3 ± 2.2 (15.5–23) 16.7 ± 0.4 (16.4–16.9) 22.1 ± 2.1 (20.1–24.3) 21.2 ± 2.2 (18.9–24.7)
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