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Intraspecific variation in phenotypic and phylogenetic features among Pratylenchus penetrans isolates from Wisconsin, USA Cover

Intraspecific variation in phenotypic and phylogenetic features among Pratylenchus penetrans isolates from Wisconsin, USA

Open Access
|Nov 2020

Figures & Tables

Figure 1:

Map of Wisconsin, USA, marked with circles that represent the number of isolates and field populations sampled for haplotype network analysis per county.
Map of Wisconsin, USA, marked with circles that represent the number of isolates and field populations sampled for haplotype network analysis per county.

Figure 2:

Four clusters of the Wisconsin Pratylenchus penetrans isolates based on morphological characters analyzed by Hierarchical Agglomerative Clustering (HAC). The scale represents the Euclidean distance in canonical space.
Four clusters of the Wisconsin Pratylenchus penetrans isolates based on morphological characters analyzed by Hierarchical Agglomerative Clustering (HAC). The scale represents the Euclidean distance in canonical space.

Figure 3:

Scatter plot of the clusters of Wisconsin isolates chosen by Hierarchical Agglomerative Clustering (HAC) of morphological characters displayed using canonical variates 1 and 2 (A), canonical variates 2 and 3 (B), and canonical variates 1 and 3 (C).
Scatter plot of the clusters of Wisconsin isolates chosen by Hierarchical Agglomerative Clustering (HAC) of morphological characters displayed using canonical variates 1 and 2 (A), canonical variates 2 and 3 (B), and canonical variates 1 and 3 (C).

Figure 4:

COI (mitochondrial cytochrome c oxidase subunit 1) haplotype network of Pratylenchus penetrans using TCS network. Circle size and hash marks between haplotypes represent numbers of specimens included in each haplotype and mutations, respectively. Geographical location of the population is designated by color. Median vectors are shown as black circles.
COI (mitochondrial cytochrome c oxidase subunit 1) haplotype network of Pratylenchus penetrans using TCS network. Circle size and hash marks between haplotypes represent numbers of specimens included in each haplotype and mutations, respectively. Geographical location of the population is designated by color. Median vectors are shown as black circles.

Figure 5:

Maximum likelihood tree of mitochondrial cytochrome c oxidase subunit 1 (COI) sequences to infer evolutionary relationship of the Wisconsin Pratylenchus penetrans populations. Bootstrap values below 75 were omitted from the nodes. Haplotypes are labeled and also designated by the vertical red bar. Information about the haplotypes appears in Table 3.
Maximum likelihood tree of mitochondrial cytochrome c oxidase subunit 1 (COI) sequences to infer evolutionary relationship of the Wisconsin Pratylenchus penetrans populations. Bootstrap values below 75 were omitted from the nodes. Haplotypes are labeled and also designated by the vertical red bar. Information about the haplotypes appears in Table 3.

Mean and range of morphometrics and morphological features of Pratylenchus penetrans isolates from Portage, Marathon, and Chippewa counties in Wisconsin_

Portage 1Portage 2Marathon 1Marathon 2Chippewa 1Chippewa 2
L a 675 (602-832)637 (544-748)595 (513-682)628 (507-702)594.8 (494-694)630 (564-704)
V%80.3 (77.5-82.5)79.0 (75.0-82.0)78.8 (75.6-81.1)80.9 (78.9-86.6)80.2 (77.3-81.9)80.7 (78.5-82.3)
a 26.4 (22.1-33.2)27.9 (24.8-32.0)25.9 (19.9-30.3)23.6 (20.2-25.7)26.1 (20.6-28.7)23.0 (18.4-28.2)
b 5.62 (4.37-6.74)6.11 (5.11-7.53)5.69 (4.81-6.93)6.09 (5.14-7.20)5.18 (4.15-5.18)5.43 (4.89-6.00)
c 18.7 (15.1-23.1)21.4 (17.3-26.7)19.2 (16.3-24.8)19.8 (14.4-31.2)18.8 (15.4-24.2)20.4 (16.4-22.8)
b′ 4.86 (3.89-5.63)5.33 (4.39-8.76)4.81 (4.17-5.78)5.15 (4.34-6.09)4.39 (3.64-5.31)4.68 (4.26-5.10)
c′ 2.44 (1.93-3.06)2.39 (1.99-2.88)2.43 (1.67-2.94)2.09 (1.42-2.86)1.67 (1.24-2.90)1.97 (1.71-2.31)
Maximum body width25.8 (21.3-29.4)22.9 (19.3-27.5)23.2 (19.0-29.3)26.7 (21.4-33.9)22.7 (19.1-27.0)27.7 (21.0-33.7)
Esophageal length121 (102-142)103 (72-128)105 (91-125)104 (83-121)116 (102-133)116 (97-138)
Head end to posterior gland140 (122-160)121 (84-145)124 (109-144)123 (101-141)134 (120-152)135 (115-157)
Anterior end to excretory pore97 (80-108)92 (67-106)91 (77-101)90 (81-98)89 (80-99)93 (84-112)
Lip region height2.47 (2.07-3.10)2.89 (2.4-4.07)2.41 (1.87-2.92)2.62 (2.09-3.15)2.44 (1.94-3.43)2.36 (2.04-2.77)
Stylet14.8 (13.9-16.2)14.3 (13.4-15.4)15.5 (14.1-17.5)14.8 (13.3-16.3)16.8 (15.3-17.9)15.3 (13.9-16.4)
DGO2.67 (2.13-3.51)2.93 (2.26-3.87)2.92 (2.08-3.54)2.46 (1.75-3.48)2.73 (2.15-3.71)2.61 (1.89-3.42)
Body width at vulva22.2 (17.6-25.9)20.0 (17.0-22.5)20.2 (17.8-22.4)23.6 (17.9-28.4)20.2 (17.9-25.1)23.4 (18.9-27.9)
PUS18.5 (15.1-22.4)14.4 (9.4-21.7)16.4 (12.1-21.8)16.5 (12.4-20.8)21.4 (14.1-35.0)18.3 (14.2-24.1)
Body width at anus15.05 (13.5-17.0)14.6 (12.7-16.9)13.8 (12.2-15.3)15.7 (12.8-18.3)14.1 (12.5-16.5)15.9 (13.1-19.8)
Tail length36.6 (30.8-52.2)34.8 (28.6-40.6)33.5 (20.3-44.0)35.6 (22.3-41.8)31.7 (22.9-42.0)31.2 (27.0-45.5)
Vulva to anus distance95 (79-119)94 (74-114)91 (81-105)89 (63-108)87 (67-110)91(79-107)
Lateral incisures4 with striation4444 with striation4
Labial annules333333
Tail tipb SMOSMOSMOSMOSMOSMO
Tail shapec SHMSHMSHMSHMSHMSHM
SpermathecaRoundRoundRoundRoundRoundRound
Spicule14.3 (11.7-17.5)14.8 (12.0-16.6)15.3 (12.4-17.2)14.7 (11.7-18.2)16.1 (13.2-19.6)15.6 (10.9-19.2)
Gubernaculum4.09 (2.71-5.71)3.92 (2.94-5.67)4.86 (3.87-5.99)3.62 (3.02-4.22)4.49 (3.50-5.94)3.56 (2.43-4.95)

Information for origin and hosts of the Pratylenchus penetrans isolates and populations used for this study, COI haplotype group assigned in this study, and GenBank accession numbers for D2/D3 expansion region of 28S and COI sequences_

GenBank Accession number
LocalitySpecimen namePlanted cropHaplotype groupCOID2/D3 of 28S rRNA
USA, Wisconsin, Brown Co.Brown-acornPp1MT527067MT528159
USA, Wisconsin, Buffalo Co. Buffalo-a soybean Pp1 MN453207 MN251253
USA, Wisconsin, Calumet Co. Calumet-a soybean Pp1 MN453210 MN251255
USA, Wisconsin, Chippewa Co. Chippewa2-a soybean Pp1 MN453213 MN251258
USA, Wisconsin, Columbia Co.Columbia1-acornPp1MT527044MT528189
USA, Wisconsin, Columbia Co.Columbia3-acornPp1MT527077MT528192
USA, Wisconsin, Crawford Co.Crawford-bPp1MT527055MT528196
USA, Wisconsin, Dunn Co.Dunn1-bsoybeanPp1MT527024MT528199
USA, Wisconsin, Eau Claire Co.Eau Claire1-asoybeanPp1MT527073MT528203
USA, Wisconsin, Eau Claire Co.Eau Claire2-asoybeanPp1MT527059MT528205
USA, Wisconsin, Grant Co. Grant-a soybean Pp1 MN453211 MN251256
USA, Wisconsin, Iowa Co. Iowa-a soybean Pp1 MN453217 MN251263
USA, Wisconsin, Jackson Co.Jackson1-asoybeanPp1MT527038MT528171
USA, Wisconsin, Jackson Co.Jackson2-asoybeanPp1MT527053MT528208
USA, Wisconsin, Jefferson Co.Jefferson2-asoybeanPp1MT527015MT528173
USA, Wisconsin, Jefferson Co.Jefferson3-acornPp1MT527085MT528210
USA, Wisconsin, Juneau Co.Juneau1-aPp1MT527037MT528175
USA, Wisconsin, Manitowoc Co.Manitowoc-acornPp1MT527045MT528215
USA, Wisconsin, Marathon Co. Marathon1-a soybean Pp1 MN453215 MN251261
USA, Wisconsin, Marathon Co.Marathon3-aPp1MT527035MT528176
USA, Wisconsin, Marquette Co. Marquette1-a soybean Pp1 MN453214 MN251259
USA, Wisconsin, Marquette Co.Marquette2-acornPp1MT527090MT528216
USA, Wisconsin, Monroe Co.Monroe-bPp1MT527019MT528178
USA, Wisconsin, Outagamie Co.Outagamie1-asoybeanPp1MT527089MT528219
USA, Wisconsin, Outagamie Co.Outagamie2-asoybeanPp1MT527070MT528220
USA, Wisconsin, Pierce Co.Pierce-asoybeanPp1MT527042MT528222
USA, Wisconsin, Portage Co.Portage3-asoybeanPp1MT527074MT528223
USA, Wisconsin, Portage Co.Portage4-bPp1 MT527021MT528182
USA, Wisconsin, Sauk Co.Sauk-asoybeanPp1MT527048MT528227
USA, Wisconsin, Sawyer Co.Sawyer-asoybeanPp1MT527064MT528230
USA, Wisconsin, Vernon Co.Vernon-asoybeanPp1MT527050MT528232
USA, Wisconsin, Waushara Co.Waushara-ckidney beansPp1MT527017MT528188
USA, Nebraska, Otoe Co.applePp1MK877987b
USA, Nebraska, Phelps Co.cornPp1MK877993b
Japan, ChibaCA193a wild carrotPp1KY817024a EU130857c
The Netherlands, ZoetermeerT181a grassesPp1KY817007a
Colombia, San VicenteT666a cape gooseberryPp1KY816982a KY828351a
Colombia, San VicenteT677a cape gooseberryPp1KY816981a KY828350a
Colombia, San VicenteT678a cape gooseberryPp1KY816980a KY828349a
Colombia, San VicenteT679a cape gooseberryPp1KY816979a
The Netherlands, WemeldingeT725a sweet cherryPp1KY816949a
The Netherlands, NageleV3Fa applePp1KY916940a KY828346a
The Netherlands , MeijelV4Ba applePp1KY816939a KY828345a
The Netherlands, WemeldingeV8Aa applePp1KY816936a KY828342a
USA, Wisconsin, Marathon Co. Marathon2-a soybean Pp2 MN453219 MN251265
Japan, AichiCA85a wild cabbagePp3KY817021a EU130860c
USA, Wisconsin, Clark Co.Clark-bcornPp4MT527033MT528161
USA, Wisconsin, Marquette Co.Marquette3-asoybeanPp4MT527079MT528218
USA, Wisconsin, Outagamie Co.Outagamie2-bsoybeanPp4MT527071MT528221
USA, AlaskapeonyPp4MK877984b
The Netherlands, StramproyT716a sweet cherryPp5KY816958a
USA, Wisconsin, Monroe Co.Monroe-aPp6MT527018MT528177
USA, Wisconsin, Portage Co. Portage2-a soybean Pp6 MN453205 MN251267
USA, MinnesotacornPp6MK877982b
The Netherlands, StramproyT715a sweet cherryPp6KY816959a
USA, Wisconsin, Clark Co.Clark-ccornPp7MT527033MT528161
USA, Wisconsin, Dunn Co.Dunn2-asoybeanPp7MT527054MT528202
USA, Wisconsin, Racine Co.Racine-asoybeanPp7MT527062MT528224
The Netherlands, MeijelV1Ba applePp7KY816942a KY828348a
USA, Wisconsin, Adams Co.Adams-aPp8MT527029MT528157
USA, Wisconsin, Portage Co. Portage1-a soybean Pp8 MN453204 MN251266
Rwanda, NyakirbiaT172a pearPp8KY817009a KY828356a
The Netherlands, ApeldornT293a pearPp8KY816992a KY828353a
The Netherlands, SambeekT686a applePp8KY816976a
The Netherlands, SambeekT687a applePp8KY816975a
The Netherlands, SchimmertT699a plumPp8KY816972a
The Netherlands, KloetingeT723a sweet cherryPp9KY816951a
USA, Wisconsin, Clark Co.Clark-acornPp10MT527034MT528160
USA, Wisconsin, Columbia Co.Columbia2-asoybeanPp10MT527078MT528191
USA, Wisconsin, Crawford Co.Crawford-aPp10 MT527056MT528195
USA, Wisconsin, Dodge Co.Dodge1-asoybeanPp10MT527025MT528162
USA, Wisconsin, Dodge Co.Dodge2-asoybeanPp10MT527041MT528163
USA, Wisconsin, Dodge Co.Dodge2-bsoybeanPp10MT527080MT528164
USA, Wisconsin, Eau Claire Co.Eau Claire2-bsoybeanPp10MT527058MT528206
USA, Wisconsin, Fond du Lac Co.Fond du Lac-awheatPp10MT527084MT528165
USA, Wisconsin, Green Co.Green-aPp10MT527032MT528169
USA, Wisconsin, Jackson Co.Jackson1-bsoybeanPp10MT527039MT528170
USA, Wisconsin, Jefferson Co.Jefferson1-acornPp10MT527040MT528172
USA, Wisconsin, Jefferson Co.Jefferson2-bsoybeanPp10MT527026MT528174
USA, Wisconsin, Juneau Co.Juneau2-asoybeanPp10MT527087MT528212
USA, Wisconsin, Monroe Co.Monroe-cPp10MT527051MT528179
USA, Wisconsin, Portage Co.Portage4-aPp10MT527020MT528183
USA, Wisconsin, Sauk Co.Sauk-bsoybeanPp10MT527047MT528228
USA, Wisconsin, Trempeleau Co.Trempeleau-aPp10MT527028MT528185
USA, Wisconsin, Waushara Co.Waushara-bkidney beansPp10MT527036MT528187
USA, Wisconsin, Wood Co. Wood-a soybean Pp10 MN453208 MN251254
USA, IdahopotatoPp10MK877988b
USA, Wisconsin, Waushara Co.Waushara-akidney beansPp11MT527016MT528186
USA, Wisconsin, Sheboygan Co. Sheboygan-a soybean Pp12 MN453212 MN251257
USA, Wisconsin, Chippewa Co. Chippewa1-a soybean Pp13 MN453206 MN251252
USA, Wisconsin, Dunn Co.Dunn1-asoybeanPp14MT527082 MT528200
USA, California, Stanislaus Co.CA91a cowpeaPp14KY817023a EU130862c
USA, Wisconsin, Dane Co.Dane-bsoybeanPp15MT527068 MT528198
France, BritanyCA192a applePp15KY817022a KY828242a
Ethiopia, ShashamaneT225a cornPp15KY817001a KY828354a
The Netherlands, Hei en BoeicopT296a pearPp15KY816990a
The Netherlands, VredepeelT44a wild carrotPp15KY817020a KY828359a
The Nethelands, SchimmertT697a plumPp15KY816974a
The Netherlands, KloetingeT720a sweet cherryPp15KY816954
The Netherlands, St. OedenrodeT730a grape vinePp15KY816944a
The Netherlands, BaarloV3Aa applePp15KY816941a KY828347a
The Netherlands, WemeldingeT726a sweet cherryPp16KY816948a
USA, Wisconsin, Adams Co.Adams-bPp17MT527066MT528158
USA, Wisconsin, Sawyer Co.Sawyer-bsoybeanPp17MT527065 MT528229
USA, Wisconsin, Columbia Co.Columbia1-bcornPp18MT527043MT528190
The Netherlands, StramproyT714a sweet cherryPp18KY816960a
The Netherlands, StramproyT713a sweet cherryPp19KY816961a
USA, Wisconsin, Dane Co.Dane-asoybeanPp20MT527069MT528197
USA, Wisconsin, Marquette Co.Marquette2-bcornPp20MT527091MT528217
Rwanda, NyakirbiaT143a onionPp20KY817013a KY828357a
Rwanda, NyakiribaT144a onionPp20KY817012a
Rwanda, NyakiribaT145a onionPp20KY817011a
The Netherlands, ArkelT184a pearPp20KY817005a
Rwanda, BushokiT200a potatoPp20KY817004a KY828355a
The Netherlands, Hei en BoeicopT295a pearPp20KY816991a KY828352a
The Nethelands, SchimmertT698a plumPp20KY816973a
The Netherlands, KloetingeT721a sweet cherryPp20KY816953a
The Netherlands, WemeldingeT724a sweet cherryPp20KY816950
The Nethelands, ZoetermeerT132a grassesPp21KY817015a KY828358a
The Netherlands, KloetingeT722a sweet cherryPp21KY816952

Pairwise distance (percent similarity) for CO1 mtDNA between 13 P_ penetrans isolates from Wisconsin_

PopulationPortage 1Portage 2Marathon 1Marathon 2Chippewa 1Chippewa 2CalumetSheboyganWoodMarquetteBuffaloGrantIowa
% similarity on COI sequences
Portage 1
Portage 299.5
Marathon 194.595.0
Marathon 294.294.899.8
Chippewa 195.095.095.595.5
Chippewa 294.595.0100.0100.095.5
Calumet94.595.0100.0100.095.5100.0
Sheboygan95.095.095.595.599.595.595.5
Wood95.595.596.596.598.596.596.598.5
Marquette94.595.0100.0100.095.5100.0100.095.596.5
Buffalo94.595.0100.0100.095.5100.0100.095.596.5100.0
Grant94.595.0100.0100.095.5100.0100.095.596.5100.0100.0
Iowa94.595.0100.0100.095.5100.0100.095.597.6100.0100.099.9

Mean and range of morphometrics and morphological features of the Pratylenchus penetrans isolates from Calumet, Sheboygan, Wood, Marquette, Buffalo, Grant, and Iowa counties in Wisconsin_

CalumetSheboyganWoodMarquette 1BuffaloGrantIowa
L a 603 (497-844)624 (556-728)605 (541-717)603 (518-749)548 (465-608)588 (495-704)701 (631-818)
V%79.9 (76.0-82.4)79.7 (77.6-81.7)79.2 (74.8-81.0)80.0 (77.3-81.8)80.9 (78.2-83.9)80.8 (78.3-85.2)79.7 (77.4-81.9)
a 28.7 (24.2-38.5)28.1 (25.0-30.4)26.2 (20.9-30.3)24.6 (20.7-29.5)25.7 (22.7-29.2)28.2 (22.6-31.9)24.1 (21.1-27.7)
b 5.39 (4.44-6.11)5.69 (4.77-7.10)5.33 (4.59-6.38)5.68 (4.42-7.22)5.20 (4.46-6.21)5.12 (4.34-6.11)6.44 (5.36-7.56)
c 18.8 (13.9-23.7)20.9 (16.1-33.2)23.0 (19.2-31.0)20.1 (16.0-24.8)24.7 (19.4-30.5)20.9 (15.2-31.2)20.3 (17.7-29.1)
b′ 4.62 (3.82-5.26)4.85 (4.20-5.88)4.58 (4.08-5.38)4.83 (3.87-5.90)4.43 (3.78-5.36)4.40 (3.81-5.23)5.47 (4.65-6.31)
c′ 2.57 (2.02-3.29)2.20 (1.43-2.77)2.26 (1.79-3.16)2.01 (1.66-2.67)1.96 (1.62-2.40)2.27 (1.61-3.15)2.16 (1.82-2.62)
Maximum body width21.0 (19.4-24.9)22.3 (20.4-28.6)23.2 (20.1-32.4)24.6 (19.2-30.6)21.3 (19.4-23.4)20.9 (18.0-27.3)29.2 (24.9-34.8)
Esophageal length112 (92-138)110 (87-134)114 (109-154)107 (88-137)106 (89-116)116 (95-131)109 (86-128)
Head end to posterior gland131 (108-160)129 (106-152)132 (109-154)126 (107-155)124 (109-134)134 (114-149)129 (104-148)
Anterior end to excretory pore94 (85-117)92 (79-102)90 (81-101)86 (75-110)87 (77-95)88 (78-100)95 (84-110)
Lip region height3.17 (2.24-3.87)3.02 (2.39-3.88)3.02 (2.17-3.89)2.37 (1.87-2.99)3.04 (2.42-3.51)3.29 (2.56-3.96)2.43 (1.69-3.08)
Stylet14.8 (13.8-17.7)15.3 (14.3-16.6)14.9 (13.6-16.6)15.8 (14.6-17.7)14.8 (14.0-15.9)14.9 (13.9-15.8)15.9 (14.8-17.4)
DGO3.09 (2.39-4.45)2.98 (2.21-3.88)2.79 (2.18-3.46)2.63 (1.77-3.32)2.92 (2.30-3.59)2.85 (2.11-3.57)2.49 (1.88-3.06)
Body width at vulva19.6 (17.4-22.5)19.7 (17.5-24.3)20.6 (16.7-28.9)21.4 (16.7-25.0)18.9 (16.4-21.6)18.5 (15.8-22.9)25.6 (23.0-29.2)
PUS21.9 (11.8-35.2)15.5 (9.2-21.0)16.7 (11.7-16.4)22.0 (16.3-34.9)16.4 (11.1-23.3)15.3 (11.3-22.5)19.8 (13.9-28.5)
Body width at anus12.6 (11.1-14.2)14.0 (12.1-17.5)14.3 (11.7-16.4)15.1 (11.3-17.5)13.5 (11.3-15.3)12.8 (9.5-16.0)16.2 (11.8-17.8)
Tail length32.4 (26.1-44.7)30.8 (19.4-42.6)32.1 (27.5-42.7)30.3 (23.1-40.3)26.4 (21.5-31.9)28.9 (20.2-37.9)34.9 (25.5-43.2)
Vulva to anus distance91 (62-124)96.51 (86-121)94 (75-119)89 (73-109)79 (65-105)84 (65-113)107 (90-131)
Lateral incisures44 with striation4 with striation44 with striation4 with striation4 with striation
Labial annules3333333
Tail tipb SMOSMO, ANNSMOSMOSMO, CFTSMO, ANNSMO
Tail shapec SHM, TRC, CLASHM, SBD, CLASHMSHMSHM, TRC, CLASHM, TRCSHM
SpermathecaRoundRoundRoundRoundRoundRoundRound
Spicule16.2 (12.3-20.1)15.4 (12.1-20.0)14.4 (11.7-17.9)14.9 (13.1-17.3)15.3 (11.0-18.5)15.4 (12.8-18.7)15.2 (13.0-17.5)
Gubernaculum3.87 (2.69-4.88)3.98 (2.74-5.18)3.99 (2.96-5.59)3.75 (3.27-4.09)3.56 (2.58-5.73)3.60 (2.74-4.28)4.17 (3.65-4.47)
DOI: https://doi.org/10.21307/jofnem-2020-102 | Journal eISSN: 2640-396X | Journal ISSN: 0022-300X
Language: English
Page range: 1 - 17
Published on: Nov 24, 2020
Published by: Society of Nematologists, Inc.
In partnership with: Paradigm Publishing Services
Publication frequency: 1 issue per year

© 2020 Kanan Saikai, Ann E. MacGuidwin, published by Society of Nematologists, Inc.
This work is licensed under the Creative Commons Attribution 4.0 License.