Sex, bugs and Haldane's rule: the nematode genus Pristionchus in the United States
© Herrmann et al; licensee BioMed Central Ltd. 2006
Received: 14 June 2006
Accepted: 12 September 2006
Published: 12 September 2006
The nematode Pristionchus pacificus has been developed as a satellite organism in evolutionary developmental biology for comparison to Caenorhabditis elegans. Comparative studies have revealed major differences in the regulation of developmental processes between P. pacificus and C. elegans. To place evolutionary developmental biology and the observed developmental differences between species in a comprehensive evolutionary context, such studies have to be complemented with ecological aspects. Knowledge about the ecology of the organism in question might indicate specific environmental conditions that can result in developmental adaptations and could account for species differences in development. To this end, we have started to investigate the ecology of Pristionchus nematodes. In recent field studies in Western Europe we found six Pristionchus species that are closely associated with scarab beetles and the Colorado potato beetle. This Pristionchus – beetle association provides the unique opportunity to combine research in evolutionary developmental biology with ecology. However, it remains unknown how general these findings from Europe are on a global scale.
Here, we describe the Pristionchus species associated with scarab and Colorado potato beetles in the Eastern United States and show striking transatlantic differences and unexpected evolutionary and ecological patterns. Twohundredeighty of 285 (98%) isolates from American scarab beetles belong to five Pristionchus species, all of which are different from the European species. We describe four of them as novel Pristionchus species. The five American Pristionchus species fall into a single phylogenetic clade and have a male-female (gonochoristic) mode of reproduction, whereas the majority of European isolates are hermaphroditic. Crosses between the two most closely related species, P. aerivorus and P. pseudaerivorus n. sp., follow Haldane's rule in that heterogametic F1 males are inviable. We observed P. aerivorus and P. pseudaerivorus n. sp. coexisting on the same scarab beetle and obtained two cases of F1 hybrids from wild beetles. Finally, the Colorado potato beetle is associated with the same nematode, P. uniformis in the United States and Europe. Given the introduction of the Colorado potato beetle to Europe in 1877, our results suggest that P. uniformis was introduced together with its beetle vector.
Taken together, the Pristionchus – beetle association provides a powerful tool for studying biodiversity, biogeography, speciation and species invasion on a global scale.
The diplogastrid nematode Pristionchus pacificus has been developed as a satellite organism in evolutionary developmental biology . P. pacificus is a hermaphroditic species that can feed on E. coli and has a 3–4 day generation time (20°C) . Original studies in P. pacificus concentrated on the developmental, genetic and molecular analysis of sex determination, vulva and gonad formation . More recently, a genomic initiative including the generation of a genetic linkage map and a physical map has complemented the developmental and genetic studies [4, 5]. A whole genome sequencing project is currently ongoing and should result in a draft of the complete genome sequence in the near future .
In general, little is known about the ecology of the nematode species used as laboratory organisms, such as P. pacificus and C. elegans. For example, the environmental niche of the model organism C. elegans is largely unknown and only very recently did several studies indicate that C. elegans occurs predominantly in compost heaps [6, 7]. We have recently shown that nematodes of the genus Pristionchus live in close association with scarab beetles and the Colorado potato beetle (CPB) in Western Europe . Intensive samplings in 2004 and 2005 generated 371 isolates that fell into six species, most of which are morphologically indistinguishable from one another. The two hermaphroditic species P. entomophagus and P. maupasi accounted for 226 of these 371 (60%) isolates and occurred on dung beetles and cockchafers, respectively. However, the satellite organism P. pacificus was neither observed on scarab beetles nor on the CPB in Western Europe.
In total, 27 species of the genus Pristionchus are described in the literature, but only four of these descriptions are younger than 1958 and many are from the 19th century . Also, many of these descriptions are rather short and lack illustrations. Type material does not exist in most cases – either because it never existed or because it got lost. Furthermore, it has long been known that morphometric values of Pristionchus species change during culture under laboratory conditions . Taking this high phenotypic plasticity into account, the 27 species descriptions contain most likely a number of synonyms. Facing all of these problems of „classical“ taxonomy, we have started to use a novel methodology to investigate the biodiversity and phylogeny of Pristionchus nematodes. Following the isolation of Pristionchus nematodes from wild caught beetles, we establish isogenic female lines. These isogenic female lines are first processed by SSU sequence analysis for molecular barcoding. Previous studies have indicated that this method is robust and provides a clear indication for species identity or evidence for the existence of a novel species . To confirm the species identification by molecular barcoding we perform mating experiments of a new isolate with the reference strain of the representative species. For the reference strain of a novel species, morphometric measurements are provided in addition to the molecular sequence tag. Also, a frozen stock collection has been established, type material is delivered to museums and strains are available upon request. We strongly believe that this comprehensive methodology – molecular barcoding, mating experiments, morphometric measurements, frozen stock collection and type material at museum collections – provides the optimal tool for species identification and analysis in this group of nematodes.
In the present study we surveyed the association of Pristionchus species with scarab beetles and the CPB in the Eastern United States, particularly in the states of New York, Massachusetts, Nebraska, Ohio, Iowa, Texas, and Kansas. The two studies indicate striking differences in the species composition, mode of reproduction and speciation frequency of Pristionchus species on the two continents. More than 98% of the Pristionchus isolates from the Eastern United States represent five species, all of which are unknown from Europe. Given the rationale described above, we describe four novel Pristionchus species. These results establish Pristionchus as a nematode model system for biogeography and biodiversity and represent an important difference to the biogeography of Caenorhabditis species. In addition, the analysis of Pristionchus species in the US provided two unexpected cases that help to establish Pristionchus as a future model system in two additional areas of evolutionary biology and ecology, namely speciation and species invasion. Crosses between the two most closely related American species, Pristionchus aerivorus and Pristionchus pseudaerivorus n. sp., result in inviable males following Haldane's rule. Haldane's rule states that in hybrids between diverging species the sterile, absent or underrepresented offspring is of the heterogametic sex . Finally, the CPB is associated with the same nematode, Pristionchus uniformis in the US and Europe. Given the introduction of the CPB to Europe in 1877, these results suggest that P. uniformis was introduced together with its beetle vector. Species invasion is a common phenomenon in contemporary ecology and biogeography and the P. uniformis case reported in this study might represent a useful tool for future genetic and molecular studies on species invasion.
Five of the Pristionchus species found on scarab beetles in the US do not occur in Europe
Frequencies of Pristionchus isolates on beetles.
No. of individuals
Nematode species of the genus Pristionchus have little diagnostic morphological characters and usually show overlapping ranges of morphometric values [14, 8]. Prior to our own studies on P. pacificus, only one Pristionchus species, P. aerivorus, was described for North America by Cobb in 1916 [9, 15]. All previously obtained strains of P. pacificus from North America result from soil samples taken by various researchers [8, 13]. It is important to note that all of these soil-derived P. pacificus strains represent random findings within a sampled locality. P. pacificus was a rare nematode in these soil samples and multiple isolates from the same soil sample are not available.
Morphometric measurements of the Pristionchus species
P. aerivorus (Cobb in Meirill & Ford 1916)
P. aerivorus RS 5106
P. pseudaerivorus RS 5139
P. marianneae RS 5108
P. paulii RS 5130
P. americanus RS 5140
Pristionchus marianneae n. sp
Diagnostic character: The species is characterized by a 471 bp sequence of a 1 kb fragment of the small subunit ribosomal RNA gene (SSU) that was amplified by PCR with the primers shown in Materials and Methods. This SSU sequence is distinct from the SSU sequence of all other Pristionchus species, but is identical between all isolates of P. marianneae. The sequence is shown in Fig. 2.
GenBank accession code: DQ419901
A second diagnostic character is provided by mating experiments. P. marianneae males mate with females of other isolates but not with females/hermaphrodites of other species.
Morphological measurements: see Table 2
Type host and locality: On Popilia japonica (Coleoptera: Scarabaeidae) near Geneva, New York, United States of America.
Etymology: R. J. S and M. H. want to dedicate this species to their mothers.
Frozen strain number: RS5108
Holotype: One male permanent slide No: SMNK-NEMA-T0022 (Natural History Museum Karlsruhe, Germany)
Paratypes: One male and one female permanent slide No: SMNK-NEMA-T0023; One male and one female permanent slide No: SMNK-NEMA-T0024
Pristionchus pauli n. sp
Diagnostic character: The species is characterized by a 471 bp sequence of a 1 kb fragment of the small subunit ribosomal RNA gene (SSU) that was amplified by PCR with the primers shown in Materials and Methods. This SSU sequence is distinct from the SSU sequence of all other Pristionchus species, but is identical between all isolates of P. pauli. The sequence is shown in Fig. 2.
GenBank accession code: DQ419900
A second diagnostic character is provided by mating experiments. P. pauli males mate with females of other isolates but not with females/hermaphrodites of other species.
Morphological measurements: see Table 2
Type host and locality: On Lichnanthe vulpina (Coleoptera: Scarabaeidae) in Carver, Massachusetts, United States of America
Etymology: M. H. wants to dedicate this species to Dr. Paul S. Robbins, an outstanding beetle expert and true friend.
Frozen strain number: RS5130
Holotype: One male permanent slide No: SMNK-NEMA-T0025 (Natural History Museum Karlsruhe, Germany)
Paratypes: One male and one female permanent slide No: SMNK-NEMA-T0026; One male and one female permanent slide No: SMNK-NEMA-T0027
Pristionchus americanus n. sp
Diagnostic character: The species is characterized by a 471 bp sequence of a 1 kb fragment of the small subunit ribosomal RNA gene (SSU) that was amplified by PCR with the primers shown in Materials and Methods. This SSU sequence is distinct from the SSU sequence of all other Pristionchus species. The sequence is shown in Fig. 2.
GenBank accession code: DQ419904
P. americanus males do not mate successfully with females/hermaphrodites of other species.
Morphological measurements: see Table 2
Type host and locality: On Polyphylla fullo (Coleoptera: Scarabaeidae) in Centerville, Massachusetts, United States of America
Etymology: This species has been found only in the United States of America so far. Frozen strain number: RS5140
Holotype: One male permanent slide No: SMNK-NEMA-T0019 (Natural History Museum Karlsruhe, Germany)
Paratypes: One male and one female permanent slide No: SMNK-NEMA-T0020; One male and one female permanent slide No: SMNK-NEMA-T0021
Pristionchus pseudaerivorus n. sp
Diagnostic character: The species is characterized by a 472 bp sequence of a 1 kb fragment of the small subunit ribosomal RNA gene (SSU) that was amplified by PCR with the primers shown in Materials and Methods. This SSU sequence is distinct from the SSU sequence of all other Pristionchus species, but is identical between all isolates of P. pseudaerivorus. The sequence is shown in Fig. 2.
GenBank accession code: DQ419902
Morphological measurements: see Table 2
Type host and locality: On Phyllophaga sp. (Coleoptera: Scarabaeidae) near Lincoln, Nebraska, United States of America.
Etymology: The species is very similar in respect to morphological measurements and molecular sequence to P. aerivorus. Mating experiments revealed that crosses between P. pseudaerivorus and P. aerivorus can result in sterile females.
Frozen strain number: RS5139
Holotype: One male permanent slide No: SMNK-NEMA-T0028 (Natural History Museum Karlsruhe, Germany)
Paratypes: One male and one female permanent slide No: SMNK-NEMA-T0029; One male and one female permanent slide No: SMNK-NEMA-T0030
Pristionchus species sampled on American scarab beetles are predominantly gonochoristic
The Pristionchus species from the US form a phylogenetic clade together with P. maupasi
P. aerivorus and P. pseudaerivorus n. sp. follow Haldane's rule
The primary signal in P. pacificus and C. elegans sex determination is the ratio of the set of X chromosomes to autosomes . Animals with two X chromosomes develop as females (XX), whereas animals with a single X chromosome develop as males (XO). Theoretically, the absence of males among the F1 hybrid animals could result from the death of the putative XO animals or the sexual transformation of these animals into females. The latter scenario was observed in crosses of Caenorhabditis remanei with Caenorhabditis briggsae .
Additional support for the results of the laboratory crosses came from genotyped Pristionchus nematodes from wild scarab beetles. We found two cases of hybrids between P. aerivorus and P. pseudaerivorus n. sp. emerging from individual beetles (Fig. 6B). Genotyping of other Pristionchus individuals from the same two beetles revealed that they carried both P. aerivorus and P. pseudaerivorus n. sp., suggesting that the observed hybrids are the result of cross-species fertilization (Fig. 6B). However, both hybrid animals were isolated more than a week after the beetle was placed on the petri dish. Therefore, it remains unknown if the observed hybrids came from the generation that lived on the beetle or whether it originated from fertilization in the laboratory. Taken together, P. aerivorus and P. pseudaerivorus n. sp. co-exist on the same beetles in nature, they can form hybrids and laboratory-derived F1 hybrids follow Haldane's rule. In addition, both species have a similar geographic distribution in our sampling.
The Colorado potato beetle hosts the same Pristionchus species in North America and Europe
Finally, we wanted to know if Pristionchus nematodes occur in association with the CPB Leptinotarsa decemlineata in the United States. Our analysis of CPB in Europe had indicated that one species, P. uniformis, infests these beetles with high specificity . The CPB is a pest species that originated in Mexico, where it extended its range of host plants from the wild solanaceae buffalo bur (Solanum rostratum) to include the potato (Solanum tuberosum). It migrated further north to the United States and was first described in Colorado in 1811. Spreading towards the East it reached the Atlantic coast in 1874 and was first reported in Europe in 1877 [17, 18].
We collected CPB from two different locations in Ohio and New York State and found Pristionchus nematodes with an infestation rate of up to 60% (Table 1). Sequence analysis and mating experiments revealed that all of these isolates belong to P. uniformis, the same species that is found on European CPB. Thus, in contrast to scarab beetles, the CPB hosts the same (and only one) Pristionchus species on both continents, P. uniformis. Given the recent invasion of the CPB to Europe we speculate that P. uniformis was introduced to Europe together with its beetle vector, the CPB, at the end of the 19th century.
We have shown that the Pristionchus species associated with scarab beetles in the Eastern United States are different from those found in Western Europe. The four predominant American species P. aerivorus, P. pseudaerivorus n. sp., P. marianneae n. sp. and P. pauli n. sp. are all unknown from Western Europe. In general, there is some preference of certain Pristionchus nematodes for a specific beetle. However, the nematode – beetle association is not striktly species-specific, an observation that is similar to what has been observed in our study in Europe . This very interesting and important issue awaits further analysis, including more comprehensive studies on additional continents and exhaustive samplings of one particular continent.
One surprising observation of our surveys in the United States and Europe is the difference in the mode of reproduction observed between the two continents. While the two predominant Pristionchus species on European scarab beetles are hermaphroditic, the four predominant American species, representing 98% of the American isolates, are gonochoristic. We speculate that the evolution of hermaphroditism is a chance event that occurs with a very low probability. Despite this fact, the Pristionchus phylogeny presented in this study strongly suggests that the evolution of hermaphroditism has occurred multiple times independently: The hermaphroditic species P. pacificus, P. maupasi and P. entomophagus belong to three different clades of the genus and all of them have gonochoristic sister species (Fig. 4). Two different explanations can account for this pattern. First, speciation of hermaphroditic species might be absent or at least not very frequent. Alternativley, more frequent extinctions of hermaphroditic lineages than gonochoristic ones can also explain the observed patterns. The latter hypothesis is further supported by the fact that hermaphroditism is mostly observed in terminal lineages. Similar results have been obtained for rhabditid species of the genus Caenorhabditis .
The satellite organism P. pacificus represents an independent clade in the Pristionchus phylogeny with only three isolates from scarab beetles from Ohio, Nebraska and Massachusetts. P. pacificus does not seem to be a common species on scarab beetles in the United States, a finding that raises two possibilities. First, P. pacificus occurs in the United States, but not in association with the beetles that were investigated in this study. Second, P. pacificus represents a species that has invaded North America recently and is not yet very common.
Several observations provide a first hint that the North American Pristionchus species are the result of relatively recent speciation events. The four most common beetle-associated species form a single clade in the phylogenetic tree. The only European species in this clade is P. maupasi, indicating that there is no complete biogeographic separation. Furthermore, this observation suggests that P. maupasi derives from a lineage that dispersed to Europe from North America. P. aerivorus and P. pseudaerivorus n. sp. co-exist on the same beetle and cross-species matings were observed under laboratory conditions following Haldane's rule. All F1 hybrid animals were sterile females. We speculate that the effect of recessive deleterious alleles in the heterogametic hybrids causes inviability of males, a phenomenon known as dominance theory . Given the easiness with which Pristionchus strains can be obtained at various places in the United States, Pristionchus nematodes provide an interesting model system to study if sympatric speciation occurs in nematodes and to study speciation and hybridization processes in general.
Finally, our studies of the CPB in the United States and Europe suggest a case of a species invasion. The introduction of the American CPB to Europe represents one of the first cases in which the invasion of an agricultural pest species was well documented. Recent studies have revealed that the genetic diversity of the CPB is much higher in North America than in Europe . This observation is consistent with the assumption that the original invasion was due to a small number or even a single founder event. The fact that the CPB in the United States and Europe hosts the same nematode, P. uniformis, strongly suggests that P. uniformis was introduced into Europe with its beetle vector. With more P. uniformis isolates in hand from both continents we can start to address the question whether the genetic variability of European P. uniformis populations is reduced when compared to that of American populations. More generally, such studies can provide an important model for nematode species invasions across continents. In this context it is important to note that the case of Pristionchus is not unique for nematode invasions by insect vectors. One recent case is of high commercial interest. The pine wood nematode Bursaphelenchus xylophilus is a major pathogen of conifers and has recently been introduced to Europe by its vector, the beetle Monochamus galloprovincialis .
In summary, the observations of the Pristionchus species pattern on scarab beetles and the CPB, as well as the easiness and frequency with which these nematodes can be isolated, indicates the potential of this nematode group for studying speciation, biodiversity, biogeography and species invasion on a global scale. When future samplings provide a global pattern of Pristionchus species and associations, the combination of field studies with genetic manipulation under laboratory conditions will allow functional investigations into nematode biodiversity and biogeography.
We describe the Pristionchus – beetle association in the Eastern United States and show striking evolutionary and ecological patterns. Most Pristionchus isolates from American scarab beetles belong to five species, all of which differ from the European species. The two most closely related species, P. aerivorus and P. pseudaerivorus n. sp., follow Haldane's rule. The Colorado potato beetle is associated with the same species, P. uniformis in the United States and Europe, suggesting that P. uniformis was introduced to Europe together with its beetle vector. Together, the Pristionchus – beetle association provides a powerful tool for studying speciation, biodiversity, biogeography and species invasion on a global scale.
Materials and methods
Isolation of nematodes
We collected different beetles at adult stage using sweeping nets, blacklight traps and pitfall traps baited with dung. The beetles were transferred to the lab alive, sacrificed by cutting them in half transversely, and put on NGM agar plates (6 cm diameter) seeded with 300 μ l of the slowly growing E. coli strain OP50. The plates were checked daily using a Zeiss Stemi 2000 dissecting scope over a period of one to three weeks for emerging and reproducing nematodes. From the emerging nematodes we produced isogenic lines by transferring single gravid females or hermaphrodites to new plates. To see whether the isolated nematodes belonged to gonochoristic or hermaphroditic species, virgin larvae were singled out onto plates. The presence of offspring indicated that they represent a hermaphroditic species.
Emerging nematodes were determined to family level with a Zeiss Stemi 2000 dissecting scope and to genus level with a Zeiss Axioplan 2 microscope using the key by Sudhaus and Fürst von Lieven . For determination several worms were transferred onto microscopic slides covered with a 0.5 mm thick layer of 5% agar and either immobilized by heating the slide over an open flame to about 60°C for a few seconds or anesthesized with sodium azide. Within the genus Pristionchus many species can not be identified by morphological methods. We therefore chose to use molecular tools and mating experiments with reference strains to distinguish the different species.
We have originally isolated up to three isogenic female lines per beetle and have processed them for sequence analysis. In nearly all cases, these isogenic female lines had identical SSU sequences. The exceptions were the observed hybrids between P. aerivorus and P. pseudaerivorus n. sp. described above, and two cases where isogenic female lines of P. aerivorus and P. pseudaerivorus or P. aerivorus and P. marianneae were derived from the same beetle. When the SSU sequences of different isogenic female lines from the same beetle were identical, only one isolate was further considered. Throughout the text (and in the Tables and Figures), we consider only one of these identical isolates per beetle. In particular, the numbers and frequencies provided in Table 1 and Figure 3 consider only one of these isolates. In Table 1, beetle individuals from the different sampling sites are pooled. There was little variation in incidence of Pristionchus species on beetles among sampling sites.
Molecular species identification
Molecular species identification was done using the small subunit rRNA gene (SSU) as described before . In short, genomic DNA from single nematodes was prepared using the NaOH digestion procedure described by Floyd et al. . A single worm was transferred to 20 μ l of 0.25 M NaOH, incubated overnight at 25°C and heated to 99°C for 3 min before 4 μ l of 1M HC1, 10 μ l of 0.5 M Tris-HCl (pH 8.0) and 5 μ l of 2% Triton X-100 were added. The mixture was heated to 99°C for 3 min, frozen at -20°C and reheated at 99°C for further 3 min. Two microliters of this extract were used for subsequent polymerase chain reaction (PCR).
A 1 kb fragment of the SSU was amplified by PCR using the primers SSU18A (5'-AAAGATTAAGCCATGCATG-3') and SSU26R (5'- CATTCTTGGCAAATGCTTTCG-3') [23, 24]. The reactions were performed in 25 μ l of 1× PCR buffer (Amersham Biosciences, Freiburg, Germany) containing 2.5 mM of MgCl2, 0.16 mM of each deoxynucleoside triphosphate, 0.5 μ M of each primer, 2 μ l of the lysate, and 2 units of Taq DNA polymerase (Amersham). The reactions were started by initial denaturation at 95°C for 2 min in a PTC-200 (MJ Research, Biozym, Hess. Oldendorf, Germany) or T gradient (Biometra, Göttingen, Germany) thermocycler, followed by 35 to 40 cycles of denaturation at 95°C for 15 sec, primer annealing at 50°C for 15 sec, and extension at 72°C for 2 min. A final incubation step at 72°C for 7 min concluded the reaction. PCR products were purified by the Qiagen PCR product gel extraction kit (Qiagen, Hilden, Germany). Approximately 500 bp of the 5'-terminal end were sequenced using the primer SSU9R (5'-AGCTGGAATTACCGCGGCTG-3') and the Big Dye terminator protocol (Applied Biosystems, Darmstadt, Germany).
Sequences were aligned manually using the Seqpup 0.6f software for Macintosh . The substitution model for the reconstruction of phylogenetic relationships was selected by the hierarchical likelihood ratio test as implemented in the Modeltest 3.7 software . The selected substitution model corresponds to the Kimura 2-parameter model  with Ts/Tv = 1.4727, equal base frequencies, and a γ-correction with shape parameter α = 0.2381.
Phylogenetic trees were determined using the heuristic search algorithm under the maximum likehood (ML) criterion using PAUP*4.0bl0 program . Trees were rooted by the Koerneria sp. sequence as outgroup. Neighbour joining (NJ, ) and maximum parsimony (MP) trees were drawn by the same program. Alignment gaps were eliminated from the analysis. The topological stability of the trees was assessed by 1000 bootstrap replications .
To confirm the species identification by the molecular sequence of a novel isolate we performed mating experiments with the reference strain of the respective species (see below for definitions). Five virgin females were put on a plate with a small spot of OP50 together with five males of the reference strain of a certain species. On a second plate we picked the opposite sexes of the two strains to test for reciprocity. If there was no offspring after one week, the experiments were repeated two more times. If fertile offspring occurred we considered the two strains to belong to the same species.
Isolate and strain definitions
We use the following definitions to distinguish "isolates" and "strains". An isolate is an isogenic female line, which is derived from a beetle sample and subjected to molecular and experimental analysis. After species identification we established one isolate per species and location as a strain. The strains are permanently cultured in the lab, have a strain number and are also kept as frozen stocks. For each new species designated by molecular sequence analysis and mating experiments, one strain was defined as a reference strain (see below).
Assigning names to reference strains
According to the designation of reference strains, the 285 isolates obtained from American scarab beetle material fell into seven Pristionchus species, two of which were already cultured in our lab (P. pacificus, reference strain PS312 and P. entomophagus ref. strain RS0144). The other five could not be identified. We found the morphometric data of the most common of the unidentified species to coincide with the description of the only North American Pristionchus species listed in the catalog provided by Sudhaus and Fürst von Lieven , namely P. aerivorus. The other four species are novel and are described based on morphometric analysis, SSU sequence analysis and mating experiments (Fig. 2, Table 2 and species diagnoses). In total, the following eight Pristionchus species were obtained from scarab beetles (seven species) and the Colorado potato beetle (one species) in North America:
Pristionchus entomophagus (Steiner, 1929) (ref. str. RS0144)
Pristionchus pacificus Sommer, Carta, Kim & Sternberg, 1996 (ref. str. PS312)
Pristionchus uniformis Fedorko & Stanuszek, 1971 (ref. str. RS0141)
Pristionchus aerivorus (Cobb in Merrill & Ford, 1916) (ref. str. RS5106)
Pristionchus pseudaerivorus n. sp. Herrmann, Mayer & Sommer 2006 (ref. str. RS5139)
Pristionchus marianneae n. sp. Herrmann, Mayer & Sommer 2006 (ref. str. RS5108)
Pristionchus pauli n. sp. Herrmann, Mayer & Sommer 2006 (ref. str. RS5130)
Pristionchus americanus n. sp. Herrmann, Mayer & Sommer 2006 (ref. str. RS5140)
Comparison of ribosomal proteins
In order to obtain nuclear protein coding genes to distinguish P. americanus n. sp. from its sister species P. aerivorus, P. pseudaerivorus n. sp. and P. maupasi we isolated total RNA from 50 to 100 μ g of nematodes using the TRIZOL reagent (Invitrogen). The RNA was reverse transcribed into cDNA with the help of the Omniscript reverse transcriptase kit (Qiagen, Hilden, Germany) and the primer RH5620 (5'-GAAGATCTAGAGCGGCCGCCCTTTTTTTTTTTTTTT-3'). Based on EST data from SL1-transspliced genes from European Pristionchus species (unpublished data) we designed generic RT-PCR primers for Pristionchus ribosomal protein genes (WM8220, 5'-TCGACAACGACAGAAAGAAGA-3', rpl-26, sense; WM8221, 5'-ACGGAGTCRTCGCTGTRCTTGC-3', rpl-26, antisense; WM8263, 5'-CCGTCAGCGYGGMATCCAGAAG-3', rpl-28, sense; WM8264, 5'-GCTGGASGGAGCGGAGRAGCTG-3', rpl-28, antisense; WM8114, 5'-GCYCAYATYTTCGCYTCTTTCAA-3', rps-14, sense; WM8113, 5'-GGRGTCTTNGTTCTRGTTCCTC-3', rps-14, antisense) and used them to synthesize the complete transcript in two overlapping fragments by PCR. The SL1-specific primer BJ234 (5'-GGTTTAATTACCCAAGTTTGAG-3') was used with the antisense primers to obtain the 5' part of the transcripts and the combination of RH5620 and the sense primers to obtain the 3' parts. The PCR was performed with the help of the HotStar Taq DNA polymerase kit (Qiagen) including the Q solution in the reaction mix. Conditions were initial activation of the enzyme at 95°C for 15 min, followed by 40 cycles of denaturation at 94°C for 30 sec, primer annealing at 50°C for 30 sec, and primer extention at 72°C for 3 min. The reaction was completed by an incubation at 72°C for 10 min. PCR fragments were gel purified using the Wizard SV gel purification kit (Promega) and sequenced directly using the PCR primers.
We thank Paul Robbins and Antony Shelton at the Geneva Campus of Cornell University, the „Team Scarab“ Brett Ratcliffe, Mary Liz Jameson and Matt Paulsen at the University of Nebraska, Michael Klein and Casey Hoy for their help. We thank H. Haussmann for maintaining of Pristionchus strains and Dr. R. Hong and M. Riebesell for critically reading this manuscript.
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