- Open Access
Septoria-like pathogens causing leaf and fruit spot of pistachio
IMA Fungus volume 4, pages187–199(2013)
Several species of Septoria are associated with leaf and fruit spot of pistachio (Pistacia vera), though their identity has always been confused, making identification problematic. The present study elucidates the taxonomy of the Septoria spp. associated with pistachio, and distinguishes four species associated with this host genus. Partial nucleotide sequence data for five gene loci, ITS, LSU, EF-1α, RPB2 and Btub were generated for a subset of isolates. Cylindroseptoria pistaciae, which is associated with leaf spots of Pistacia lentiscus in Spain, is characterised by pycnidial conidiomata that give rise to cylindrical, aseptate conidia. Two species of Septoria s. str. are also recognised on pistachio, S. pistaciarum, and S. pistaciae. The latter is part of the S. protearum species complex, and appears to be a wide host range pathogen occurring on hosts in several different plant families. Septoria pistacina, a major pathogen of pistachio in Turkey, is shown to belong to Pseudocercospora, and not Septoria as earlier suspected. Other than for its pycnidial conidiomata, it is a typical species of Pseudocercospora based on its smooth, pigmented conidiogenous cells and septate conidia. This phenomenon has also been observed in Pallidocercospora, and seriously questions the value of conidiomatal structure at generic level, which has traditionally been used to separate hyphomycetous from coelomycetous ascomycetes. Other than DNA barcodes to facilitate the molecular identification of these taxa occurring on pistachio, a key is also provided to distinguish species based on morphology.
The genus Pistacia (Anacardiaceae), which is believed to have originated in Central Asia, consists of at least 11 species (Parfitt & Badenes 1997). Among these, Pistacia vera (pistachio), which is native to Western Asia and parts of the Middle East, is the only cultivated and economically important species (Tous & Ferguson 1996). Several important plant pathogens have been recorded from pistachio, causing fruit and root rot, blossom and shoot blight, canker and rust, and other problems (Michailides et al. 1995, https://doi.org/nt.ars-grin.gov/fungaldatabases/). Of these, Septoria leaf spot is one of the more important diseases associated with fruit and leaf spot.
Desmaziéres (1842) published the first description of a Septoria species causing a leaf spot of Pistacia vera in northern France, for which he introduced the name S. pistaciae. In the same year, Léveillé (1842) described and illustrated Dothidea pistaciae causing a leaf spot of a Pistacia sp. in Crimea. Cooke (1884), upon examination of the type material on which Léveillé based D. pistaciae, transferred it to Septoria. Apparently Cooke was unaware of the existence of Desmaziéres’ name. Allescher (1901) proposed the binominal S. pistacina to replace S. pistaciae (Lév.) Cooke 1884 and to differentiate it from S. pistaciae Desm. 1842. Caracciolo (1934) reported a third species from pistachio as causing a serious leaf spot in Sicily, which he subsequently described as S. pistaciarum. Finally, Chitzanidis (1956) reported sexual morphs for two of the three species, namely Mycosphaerella pistacina (for Septoria pistacina) and Mycosphaerella pistaciarum (for Septoria pistaciarum) (Teviotdale et al. 2001).
Septoria pistaciarum is known from the USA, and the eastern Mediterranean and southeast Anatolian regions (Young & Michailides 1989). Septoria pistaciae is known from the USA (Califonia), Asia (Armenia, Republic of Georgia, India, Israel, Kazakhstan, Kirgizstan, Syria, Tadjikistan, Turkey, Turkmenistan and Uzbekistan), Europe (Albania, France, Greece, Italy, Portugal and Ukraine), and Africa (Egypt) (Pantidou 1973, Dudka et al. 2004, Andrianova & Minter 2004, Haggag et al. 2006). Septoria pistacina is known from Greece (Chitzanidis 1956), Syria, Turkey and Iran (Aghajani et al. 2009), and appears to have a more limited distribution.
The application of these Septoria names to the respective diseases that they are associated with has been plagued by confusion ever since they were first introduced. The aim of the present study is to elucidate the taxonomy of the Septoria species associated with fruit and leaf spot diseases of pistachio, and to place them in a phylogenetic context within Mycosphaerellaceae.
Materials and Methods
Isolations were made from leaf spots by placing leaves in damp chambers for 1–2 d to enhance sporulation. Single conidial colonies were established from sporulating conidiomata on Petri dishes containing 2 % malt extract agar (MEA) as described earlier (Crous et al. 1991). Additional strains were obtained from the culture collection of the CBS-KNAW Fungal Biodiversity Centre (CBS), Utrecht, The Netherlands. Colonies were subcultured onto potato-dextrose agar (PDA), oatmeal agar (OA), and MEA (Crous et al. 2009c), and incubated at 25 °C under continuous near-ultraviolet light to promote sporulation. Reference strains were deposited at the CBS (Table 1).
DNA isolation, amplification and analyses
Genomic DNA was extracted from fungal colonies growing on MEA using the UltraCleanTM Microbial DNA Isolation Kit (MoBio Laboratories, Solana Beach, CA, USA) according to the manufacturer’s protocol. The primers LSU1Fd (Crous et al. 2009a) and LR5 (Vilgalys & Hester 1990) were used to amplify the partial 28S rRNA gene (LSU), ITS5 and ITS4 (White et al. 1990) were used to amplify the ITS region T1 (O’Donnell & Cigelnik 1997) and b-Sandy-R (Stukenbrock et al. 2012) were used to amplify the partial β-tubulin locus (Btub), EF1-728F (Carbone & Kohn 1999) and EF-2 (O’Donnell et al. 1998) were used to amplify the partial translation elongation factor-1α locus (EF) and fRPB2-5F (Liu et al. 1999) and fRPB2-414R (Quaedvlieg et al. 2011) were used to amplify the partial RNA polymerase II second largest subunit locus (RPB2). A basic alignment of the obtained sequence data was first done using MAFFT v. 7 [(https://doi.org/mafft.cbrc.jp/alignment/server/index.html) (Katoh et al. 2002)] and if necessary, manually improved in BioEdit v. 126.96.36.199 (Hall 1999). To check the congruency of the RPB2 and LSU datasets, a 70 % neighbour-joining (NJ) reciprocal bootstrap was performed (Mason-Gamer & Kellogg 1996, Lombard et al. 2010). A Bayesian analysis (critical value for the topological convergence diagnostic set to 0.01) was performed on the concatenated LSU/RPB2 loci using MrBayes v. 3.2.1 (Huelsenbeck & Ronquist 2001) as described by Crous et al. (2006) using nucleotide substitution models that were selected using MrModeltest v. 2.3 (Nylander 2004). Sequences derived from this study were lodged at GenBank, and the alignment was deposited in TreeBASE (https://doi.org/www.treebase.org/treebase/index.html).
Observations were made with a Zeiss V20 Discovery stereo-microscope, and with a Zeiss Axio Imager 2 light microscope using differential interference contrast (DIC) illumination and an AxioCam MRc5 camera and Zen software. Colony characters and pigment production were noted after 2 wk of growth on MEA, PDA and OA incubated at 25 °C. Colony colours (surface and reverse) were rated according to the colour charts of Rayner (1970). Morphological descriptions were based on cultures sporulating on PDA, and taxonomic novelties and metadata were deposited in MycoBank (https://doi.org/www.MycoBank.org; Crous et al. 2004).
The RPB2 and LSU sequence datasets did not show any conflicts in their tree topology for the 70 % reciprocal bootstrap trees, allowing us to combine them in the multigene analyses. The LSU sequence contained 745 base pairs, of which 99 where unique, the RPB2 sequence contained 317 base pairs, of which 157 where unique. For both datasets, the GTR-I-gamma substitution model (as calculated by MrModeltest) was used during the MrBayes run. During the generation of the tree (Fig. 1), a total of 7 216 trees were generated, and 5 412 (75 %) of them where sampled for the final tree
Cylindroseptoria pistaciae Quaedvlieg et al., Stud. Mycol. 75: 359 (2013).
Description: Conidiomata pycnidial, erumpent, globose, black, separate, with a black crusty outer layer of cells, to 200 µm diam, with a central ostiole; wall of 3–6 layers of brown textura angularis. Conidiophores reduced to conidiogenous cells. Conidiogenous cells phialidic (mostly monophialidic, but a few observed to also be polyphialidic), lining the inner cavity, hyaline, smooth, ampulliform, 5–8 × 3–4 µm, proliferating percurrently (inconspicuous) or with periclinal thickening at apex (also occurring as solitary loci on superficial hyphae surrounding pycnidia). Conidia hyaline, smooth, cylindrical, mostly straight, rarely slightly curved, apex subobtuse, base truncate, guttulate, aseptate, (9−)11−13(−18) × 2.5−3(−3.5) µm (from Quaedvlieg et al. 2013)
Culture characteristics: Colonies on PDA flat, circular, lacking aerial mycelium, surface fuscous-black, reverse olivaceousblack, after 14 d at 24 °C, 3.5 cm diam; on MEA surface fuscous-black, reverse olivaceous-black, after 14 d, 4.5 cm diam; on OA similar to PDA.
Type: Spain: Mallorca: El Arenal, on leaves of Pistacia lentiscus, 25 May 1969, H. A. van der Aa (CBS H-21301 — holotype; culture ex-type CBS 471.69).
Notes: Quaedvlieg et al. (2013) established the genus Cylindroseptoria for taxa having cupulate to pycnidial conidiomata, and phialidic conidiogenous cells with periclinal thickening, that give rise to cylindrical, aseptate conidia. Although Cylindroseptoria pistaciae was introduced as a novel species (from symptomatic leaves of Pistacia lentiscus), no information is available about its potential role as plant pathogen.
Pseudocercospora pistacina (Allesch.) Crous, Quaedvlieg & Sarpkaya, comb. nov.
Basionym: Septoria pistacina Allesch., Rabenh. Krypt.-Fl. 1(6): 830 (1900) [“1899”]
Synonyms: Dothidea pistaciae Lév., in Démidoff, Voy. Russ. Mér. 2: 108 (1842).
Non Pseudocercospora pistaciae (Chupp) Crous & U. Braun, Mycotaxon 78: 338 (2001).
Septoria pistaciae (Lév.) Cooke, Grevillea 13 (66): 45 (1884); nom. illegit., non S. pistaciae Desm. 1842.
Mycosphaerella pistacina Chitzan., Ann. Inst. Phytopath. Benaki 10: 42 (1956).
Description: Leaf spots numerous, brown, amphigenous, angular, confined by leaf veins, to 30 mm long, 3–6 mm diam, containing numerous small, aggregated, immersed conidiomata. Fruit spots grey to pale brown, 1–4 mm diam, coalescing to form larger spots, surrounded by a distinct, reddish margin. Conidiomata subepidermal, globose to depressed, to 300 µm diam with a wide central ostiole, to 100 µm diam; wall 10–20 µm thick, of 3–6 layers of brown textura angularis. Conidiophores subcylindrical, pale brown, smooth, 0–3-septate, branched or not, 10–30 × 3–5 µm. Conidiogenous cells terminal and sublateral, pale brown, smooth, subcylindrical to doliiform, 6–15 × 2.5–4 µm; proliferating several times percurrently at the apex. Conidia pale brown, smooth, guttulate, subcylindrical, curved, medianly 1-septate, constricted at the septum, apex obtuse, tapering at the base to a truncate hilum, 1.5–2 µm diam, (32−) 35−42(−50) × (3−)3.5−4(−5) µm.
Chitzanidis (1956) reports ascomata as 90−110 × 80−110 µm, asci as 44.5−54.5 × 13−14.5 µm, and ascospores as 26−40 × 3−5 µm.
Culture characteristics: Colonies after 2 wk at 24 °C reaching 10 mm diam, erumpent with sparse aerial mycelium and even, lobate margins; on OA, MEA and PDA dirty white, remaining sterile; in reverse iron-grey.
Specimens examined: Turkey: Manisa: Selendi, on Pistachio vera, 2010, K. Sarpkaya (CPC 45sln005 = CBS 135840). Gaziantep: Nizip, on P. vera, 2010, K. Sarpkaya (CPC 27NZ080 = CPC 23117). Sanliurfa: Birecik, on P. vera, 2010, K. Sarpkaya (CPC 63br043 = CBS 135841). Aydin: Merkez, on P. vera, 2010, K. Sarpkaya (CPC 09mrk010 = CPC 23118); collection site unknown, on P. vera, 2010, K. Sarpkaya (CPC 21874).
Notes: Because of the pycnidial conidiomata and pigmented conidia, Pseudocercospora pistacina can be confused with Phaeophloeospora or Kirramyces (syn. Teratosphaeria; Crous et al. 2009a, b), though it is phylogenetically unrelated to these genera. Pseudocercospora pistacina clusters basally within Pseudocercospora, but based on the genes studied here, could not be recognised as a separate genus. The genus Pseudocercospora was recently circumscribed as having species with conidiophores that are solitary, fasciculate, synnematal, or arranged in sporodochia, giving rise to conidia that are pigmented, have unthickened or slightly thickened and darkened scars (Crous et al. 2013a). By including Septoria pistacina in Pseudocercospora, we are expanding the generic circumscription of the latter to also include taxa with well-defined pycnidial conidiomata (on host and in culture). Conidiomatal structure has to date been paramount in identifying taxa with enclosed conidiomata (Sutton 1980, Nag Raj 1993), and thus P. pistacina is rather atypical within Pseudocercospora s. str.
Septoria pistaciae Desm., Annls Sci. Nat., Bot., sér. 2 17: 112 (1842).
Synonyms: Phloeospora pistaciae (Desm.) Petr., Annls mycol. 20: 18 (1922).
Cylindrosporium pistaciae (Desm.) Vassil., Fungi Imp. Paras. 2: 510 (1950).
Description: Leaf spots initially small, orbicular or oblong, scattered, brown to dark brown, 1–2 mm diam, becoming irregular, 5–10 mm, covering large portions of leaf, becoming greyish brown with distinct, narrow brown margin. Conidiomata pycnidial, amphigenous, separate or densely aggregated in the centre of leaf spots, immersed, becoming erumpent, brown to dark brown, globose to pyriform, (40−) 70−90(−120) µm diam, with central ostiole, 15–20 µm diam; wall of 3–4 layers of brown textura angularis. Conidiophores reduced to conidiogenous cells, or up to 4-septate, subcylindrical with lateral and terminal conidiogenous cells, 5−25 × 3−4 µm. Conidiogenous cells hyaline, smooth, ampulliform to subcylindrical, 5−10 × 3−4 µm, lining inner layer of conidiomatal cavity, proliferating sympodially, rarely percurrently. Conidia hyaline, smooth, 0–3-septate, (9−)13−22(−25) × (1.5−)2(−3) µm, obclavate to narrowly subcylindrical, apex subobtuse, base obconically truncate with flattened scar. Spermatial state occurring in conidiomata along with conidia. Spermatogenous cells hyaline, smooth, ampulliform, 4−6 × 3−5 µm. Spermatia hyaline, smooth, ellipsoid to subcylindrical, with obtuse ends, 2.5−3.5 × 1.5 µm.
Culture characteristics: Colonies after 2 wk at 25 °C reaching 40 mm diam on OA; surface sienna, smooth, with even margins, lacking aerial mycelium; culture sterile on OA, PDA, MEA and on barley leaves placed on synthetic nutrient-poor agar (Crous et al. 2009c).
Specimens examined: France: on leaves of Pistacia vera, 1842, Desmazière [Pl. Crypt. Nord Fr., fasc. 24, no. 1181] (PC0142144 — holotype; authentic specimen from general herbarium (PC) no. 1181, PC0142143). — Italy: on leaves of P. vera, June 1951, G. Goidánich (CBS 420.51; culture sterile).
Notes: Septoria pistaciae is part of the species complex for which Verkley et al. (2013) adopted the oldest name, S. protearum, which has an ex-type culture. Isolates in this complex could not be robustly distinguished based on a seven-gene phylogeny, and represent collections with a range of hosts covering six different plant families. Whether this is one plurivorous taxon that can undergo host jumping (Crous & Groenewald 2005), or several closely related taxa that cannot be distinguished based on the set of genes employed by Verkley et al. (2013), awaits further study and inoculation trials.
Andrianova & Minter (2004) described conidia of S. pistaciae as 1–3-septate, (20−)22−25(−34) × 1.5(−2) µm, obclavate to narrowly subcylindrical (based on type material, LE 42353). Our measurements from type material are considerably smaller, namely 0–3-septate, (9−)13−22(−25) × (1.5−)2(−3) µm (PC 0142144). Type material of S. protearum has conidia that are (0−)1−3(−4)-septate, (6−)12−22(-30) × 1.5−2 µm, obclavate to narrowly subcylindrical (Swart et al. 1998, Crous et al. 2013b). If these two taxa are eventually shown to be synonymous, the name S. pistaciae (1842) predates that of S. protearum (1998), but even that may not be the oldest epithet for this taxon. The single isolate available to us for study (CBS 420.51) proved to be sterile, so its morphology could not be confirmed.
Septoria pistaciarum Caracc., Boll. Stud. Inform. R. Giard Colon Palermo 13: 10 [extr.] (1934).
Synonym: Mycosphaerella pistaciarum Chitzan., Ann. Inst. Phytopath. Benaki 10: 42 (1956).
Description: Leaf spots angular, brown, amphigenous, 1–2 mm diam, coalescing to become larger leaf spots, confined by leaf veins. Conidiomata pycnidial, erumpent, brown, globose, to 200 µm diam, with central ostiole, exuding a crystalline cirrhus of conidia; wall of 3–6 layers of brown textura angularis. Conidiophores reduced to conidiogenous cells, or one supporting cell which can be branched at the base. Conidiogenous cells lining the inner cavity, hyaline, smooth, subcylindrical to ampulliform or doliiform, 5−15 × 2.5−4 µm, proliferating percurrently near apex, or sympodially. Conidia solitary, hyaline, smooth, guttulate, straight to curved, narrowly obclavate to subcylindrical, (1–)3-septate, apex subobtuse, base obconically truncate, 2 µm diam with minute marginal frill, (45−)55−65(−75) × (2.5−)3(−3.5) µm.
Chitzanidis (1956) reports ascomata as 95−130 × 85−120 µm, asci 47.5−60.5 × 8−12 µm, and ascospores 18−30 × 3–5 µm.
Culture characteristics: Colonies after 2 wk at 24 °C reaching 30 mm diam. Colonies erumpent, folded with feathery, lobate margins. On PDA surface olivaceous grey with patches of pale olivaceous grey and dirty white, reverse olivaceous grey. On OA surface greyish sepia with patches of dirty white, and an umber pigment diffusing into agar. On MEA surface pale olivaceous grey with patches of dirty white; olivaceous grey in reverse.
Specimens examined: Turkey: Hatay: Merkez, on Pistacia terebinthus, 2012, K. Sarpkaya (CPC 002B = CPC 23115). Sakarya: Geyve, on P. vera, 2012, K. Sarpkaya (CPC 003C = CPC 23114). Kutahya: Emet, on P. vera, 2012, K. Sarpkaya (CPC 001A = CBS 135839). Manisa: Selendi, on P. vera, 2012, K. Sarpkaya (CPC 45sln034 = CBS 135838); Demirci, on P. vera, 2012, K. Sarpkaya (CPC 5DMR032 = CPC 23116).
Notes: Septoria pistaciarum is morphologically distinct from the other species occurring on pistachio, in having much larger conidia (45−75 × 2.5−3.5 µm). In the field it can also be disnguished on diseased host plants in causing more angular leafspots, confined by leafveins.
The aim of the present study was to clarify which species of Septoria occur on pistachio, and to place them in a phylogenetic context within Mycosphaerellaceae, as recently circumscribed (Quaedvlieg et al. 2013, Verkley et al. 2013). From results obtained, it is clear that up to four septoria-like taxa occur on pistachio, of which two belong to other genera, namely Cylindroseptoria pistaciae and Pseudocercospora pistacina. The remaining two species represent true species of Septoria, namely S. pistaciae and S. pistaciarum. Because of discrepancies in previously published literature, much confusion arose regarding how to distinguish these taxa. In the present study we have been able to compile a key to facilitate identification of these taxa (see below). Sexual morphs have also been described for two of these taxa, namely Septoria pistacina (i.e. Mycosphaerella pistacina) and Septoria pistaciarum (i.e. Mycosphaerella pistaciarum) (Chitzanidis 1956, Teviotdale et al. 2001). However, because the genus Mycosphaerella is restricted to Ramularia (Verkley et al. 2004, Crous et al. 2009a, b, Koike et al. 2011), in moving towards a single nomenclature for fungi (see Hawksworth et al. 2011, Wingfield et al. 2012), the use of Mycosphaerella should be avoided for the mycosphaerella-like sexual morphs linked to Septoria.
The placement of Septoria pistacina in Pseudocercospora is somewhat controvertial, as it has a typical pycnidial conidioma, rather than superficial fascicles or synnemata encountered in Pseudocercospora. Phylogenetically, however, there is no support for recognising S. pistacina as a separate genus based on it being a “pigmented Septoria”. Morphologically, the conidiogenous cells and conidia fit the circumscription of Pseudocercospora, but the conidiomatal anatomy does not. Although species of Capnodiales are known to have synasexual morphs with closed and open conidiomata (Crous et al. 2007, 2009a, b), this is the first example of a taxon with a pycnidial conidioma that clusters among species with fasciculate conidiomata. In addition to S. pistacina, we are also aware of a second as yet undescribed species of “pigmented Septoria” (Crous et al., unpubl.), which again clusters in Pallidocercospora (Crous et al. 2013a). Another example of a genus reported to have acervuli, but observed to have superficial conidiomatal fascicles, is Ciferiella, which has also been reduced to synonymy with Pseudocercospora (Quaedvlieg et al. 2013). These findings support the view that conidiomatal morphology in Pseudocercospora is a continuum from sporulating superficially (fascicles, synnemata, sporodochia), via acervuli, to sporulation in an enclosed structure (pycnidia).
In spite of being morphologically distinct, that two of the reported septoria-like taxa on pistachio represent different genera is rather suprising. Although the pathological relevance of Pseudocercospora pistacina (as S. pistacina), S. pistaciae, and S. pistaciarum on Pistacia vera is well-documented (Michailides 2005), nothing is known about that of Cylindroseptoria pistaciae, other than it was associated with leaf spots of Pistacia lentiscus in Spain. Furthermore, it also appears that the importance of certain diseases of pistachio differs between regions or countries. Approximately 85 % of the world’s pistachio production presently comes from Iran, the USA, and Turkey (https://doi.org/faostat.fao.org/site/339/default.aspx). However, pistachio is irrigated in Iran and the USA, where more rounded fruit bearing cultivars are grown. In contrast, irrigation is not practiced in Turkey, and more elongated fruit cultivars are commonly grown there. These differences in cultivation practices also lead to differences in phytopatological problems. In the USA, the main pathogens are reported to be Botryosphaeria dothidea, Botrytis cinerea, and Alternaria alternata. In Turkey, however, Pseudocercospora pistacina is the most common disease of pistachio (Dinç 1983, Michailides et al. 1995), leading to reports of 3–100 % yield loss in epidemic years by this pathogen (Dinç et al. 1979).
Key to septoria-like species occurring on pistachio
Conidiaaseptate,9−18 × 2.5−3.5 µm .................................................................... Cylindroseptoria pistaciae
Conidia septate .............................................................................................................................................. 2
Conidia pale brown, medianly 1-septate, 32−50 × 3−5 µm ............................... Pseudocercospora pistacina
Conidia hyaline, 1–3-septate ......................................................................................................................... 3
Conidia 9−34 × 1.5−3 µm .................................................................................................. Septoria pistaciae
Conidia 45−75 × 2.5−3.5 µm ........................................................................................ Septoria pistaciarum
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We thank the technical staff, Arien van Iperen (cultures), Marjan Vermaas (photographic plates), and Mieke Starink-Willemse (DNA isolation, amplifcation and sequencing) for their invaluable assistance.
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Crous, P.W., Quaedvlieg, W., Sarpkaya, K. et al. Septoria-like pathogens causing leaf and fruit spot of pistachio. IMA Fungus 4, 187–199 (2013) doi:10.5598/imafungus.2013.04.02.04