<?xml version="1.0" encoding="UTF-8"?><!DOCTYPE article  PUBLIC "-//NLM//DTD Journal Publishing DTD v3.0 20080202//EN" "http://dtd.nlm.nih.gov/publishing/3.0/journalpublishing3.dtd"><article xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink" dtd-version="3.0" xml:lang="en" article-type="research article"><front><journal-meta><journal-id journal-id-type="publisher-id">AiM</journal-id><journal-title-group><journal-title>Advances in Microbiology</journal-title></journal-title-group><issn pub-type="epub">2165-3402</issn><publisher><publisher-name>Scientific Research Publishing</publisher-name></publisher></journal-meta><article-meta><article-id pub-id-type="doi">10.4236/aim.2021.116025</article-id><article-id pub-id-type="publisher-id">AiM-110196</article-id><article-categories><subj-group subj-group-type="heading"><subject>Articles</subject></subj-group><subj-group subj-group-type="Discipline-v2"><subject>Biomedical&amp;Life Sciences</subject></subj-group></article-categories><title-group><article-title>
 
 
  A New Report of &lt;i&gt;Uropyxis daleae&lt;/i&gt; in the Andes Range Mountains of Atacama Desert, Chile
 
</article-title></title-group><contrib-group><contrib contrib-type="author" xlink:type="simple"><name name-style="western"><surname>Germán</surname><given-names>Sepúlveda</given-names></name><xref ref-type="aff" rid="aff1"><sup>1</sup></xref><xref ref-type="corresp" rid="cor1"><sup>*</sup></xref></contrib><contrib contrib-type="author" xlink:type="simple"><name name-style="western"><surname>Wilson</surname><given-names>Huanca-Mamani</given-names></name><xref ref-type="aff" rid="aff1"><sup>1</sup></xref></contrib><contrib contrib-type="author" xlink:type="simple"><name name-style="western"><surname>Mabel</surname><given-names>Arismendi</given-names></name><xref ref-type="aff" rid="aff1"><sup>1</sup></xref></contrib><contrib contrib-type="author" xlink:type="simple"><name name-style="western"><surname>Mauricio</surname><given-names>Salazar</given-names></name><xref ref-type="aff" rid="aff2"><sup>2</sup></xref></contrib><contrib contrib-type="author" xlink:type="simple"><name name-style="western"><surname>Bernardo</surname><given-names>A. Latorre</given-names></name><xref ref-type="aff" rid="aff3"><sup>3</sup></xref></contrib></contrib-group><aff id="aff3"><addr-line>Pontificia Universidad Católica de Chile, Santiago, Chile</addr-line></aff><aff id="aff2"><addr-line>Museo Micológico-MMUNM, Facultad de Ciencias, Universidad Nacional de Colombia, Medellín, Colombia</addr-line></aff><aff id="aff1"><addr-line>Facultad de Ciencias Agronómicas, Universidad de Tarapacá, Arica, Chile</addr-line></aff><pub-date pub-type="epub"><day>17</day><month>06</month><year>2021</year></pub-date><volume>11</volume><issue>06</issue><fpage>327</fpage><lpage>334</lpage><history><date date-type="received"><day>6,</day>	<month>May</month>	<year>2021</year></date><date date-type="rev-recd"><day>26,</day>	<month>June</month>	<year>2021</year>	</date><date date-type="accepted"><day>29,</day>	<month>June</month>	<year>2021</year></date></history><permissions><copyright-statement>&#169; Copyright  2014 by authors and Scientific Research Publishing Inc. </copyright-statement><copyright-year>2014</copyright-year><license><license-p>This work is licensed under the Creative Commons Attribution International License (CC BY). http://creativecommons.org/licenses/by/4.0/</license-p></license></permissions><abstract><p>
 
 
  A rust disease caused by 
  Uropyxis daleae (Dietel &amp; Holw.) Magnus was registered on the natural population of 
  Dalea pennelli (Mac Bride) Mac Bride var. 
  chilensis Barneby in the highland near the Andes in the northernmost of Chile. This pathogen shows uredinia with the presence of paraphyses and features, larger urediniospores and teliospores than 
  U. daleae (Dietel &amp; Holway) Magn. var. 
  daleae. Based on morphological combined with 28S sequence analysis, we propose this pathogen as a new fungal variety: 
  U. daleae var. 
  socoromensis. This is the first report of 
  Uropyxis daleae var. 
  socoromensis attacking 
  D. pennelli var. 
  chilensis in Northern Chile.
 
</p></abstract><kwd-group><kwd>Uredinales</kwd><kwd> Neotropic Fungi</kwd><kwd> Endemic Fungi</kwd><kwd> Atacama Desert</kwd></kwd-group></article-meta></front><body><sec id="s1"><title>1. Introduction</title><p>Dalea pennellii (J. F. Macbr.) J. F. Macbr. var. chilensis Barneby (Fabaceae), commonly known as “retamilla,” is a small endemic shrub distributed in the highlands in northern Chile and southern Peru, above 3500 m above sea level (asl) [<xref ref-type="bibr" rid="scirp.110196-ref1">1</xref>]. It is a typical plant component of the native flora of arid landscapes [<xref ref-type="bibr" rid="scirp.110196-ref2">2</xref>]. In Chile, there is no information regarding the fungal species associated with this host plant. However, a rust fungus has been found attacking D. pennellii var. chilensis developing dusty black sori on the leaflets and stems. The rust fungi are a monophyletic, highly specialized group of obligate parasites in the phylum Basidiomycota, with a complex life cycle. Most of the rust fungi exhibit a high degree of host specificity [<xref ref-type="bibr" rid="scirp.110196-ref3">3</xref>].</p><p>Nowadays, the identification of rust fungi includes morphological and molecular studies [<xref ref-type="bibr" rid="scirp.110196-ref3">3</xref>] [<xref ref-type="bibr" rid="scirp.110196-ref4">4</xref>] [<xref ref-type="bibr" rid="scirp.110196-ref5">5</xref>]. The cell wall thickness, ornamentation, color, size, and shape of the telia and teliospores, and the pedicel characteristics and number and position of the germinative pores in the teliospores are important taxonomical features in the identification of rust fungi.</p><p>The Uredinales associated with native plants have been scarcely studied in Northern Chile but, some rust fungi have been described in coastal range and coastal valleys [<xref ref-type="bibr" rid="scirp.110196-ref6">6</xref>]. This study aims to report and describe a rust fungus associated with the canopy of D. pennellii var. chilensis, in Socoroma, Chile.</p></sec><sec id="s2"><title>2. Materials and Methods</title><sec id="s2_1"><title>2.1. Sample Collection</title><p>Samples of D. pennellii var. chilensis were collected in Socoroma (18˚16'38''S, 69˚35'28''W) in the highlands of the Andes mountains at 3200 m asl. D. pennellii var. chilensis were growing in a slope with a northern exposure, 125 km northeast of Arica city and 3 km from Socoroma, in the north of Chile (<xref ref-type="fig" rid="fig1">Figure 1</xref>). A total of 10 entire plants of D. pennellii var. chilensis showing rust, symptoms, and signs on the leaflets were collected in April and June 2017. Each sample was identified, labeled, and taken to the Plant Pathology Laboratory at Universidad de Tarapac&#225;, where morphological and molecular studies were conducted. Besides, ten plant samples were desiccated at room temperature (20˚C - 22˚C) and kept in a herbarium.</p></sec><sec id="s2_2"><title>2.2. Morphological Studies</title><p>Morphometric studies were conducted on water mount urediniospores and teliospores collected from rust sori developed on leaflet samples of D. pennellii var. chilensis.</p><p>The identification included studies of wall thickness, ornamentation, color, size, and shape of the 30 urediniopores and 30 teliospores. The characteristics of the teliospore pedicels and the number and position of the germinative pores and spore size were determined. An aqueous solution of chloral hydrate 450 g/L was used to facilitate seeing the germinal pores of the teliospores [<xref ref-type="bibr" rid="scirp.110196-ref7">7</xref>]. For the observation of morphological details of the spores, the Bruzesse and Hassan dye [<xref ref-type="bibr" rid="scirp.110196-ref8">8</xref>] was used. The preparations were sealed with nail polish, labeled, and stored at room temperature until used. Measurements and digital photographs were made with the aid of an Olympus BX51 microscope and the Q Capture-Pro version 6 Software (Surrey, BC, Canada).</p><p>For scanning electron microscope (SEM) EVO LS 10 (Carl Zeiss, Bonn, Germany) observations, where sections of leaflets of (0.2 cm<sup>2</sup>) with telia were obtained. The specimens were mounted on aluminum sample holders with double-contact carbon adhesives and analyzed in a low vacuum and in variable pressure mode, where the chamber pressure was 150 Pa (under vacuum) and in the column 2 &#215; 10<sup>−5</sup> Torr (high vacuum). The working distance used (WD) varied depending on the type of sample, and what was needed to observe, the acceleration voltage used was 15 KV and a tilt (tilt) from 0˚ to 90˚, while the images were taken with a resolution of 3024 &#215; 2304 pixels at a scanning speed of 12 minutes with 54 seconds.</p><p>The specimens were deposited in the mycological collection of Universidad de Concepci&#243;n Herbarium (CONC-F 1894).</p></sec><sec id="s2_3"><title>2.3. Molecular and Phylogenetic Analysis</title><p>Due to rust cannot be grown in culture media, teliospores were used for molecular analysis, which was removed and collected from telia on leaves with a sterile scalpel. DNA from three independent infected plants was extracted using EZNA&#174; Insect DNA Kit (Omega Bio-Tek Inc, Norcross, GA, USA) according to the manufacturer’s instructions. Subsequently, the D1/D2 domain of the large subunit ribosomal DNA 28S (LSU rDNA) was amplified using primers LR6 (5’-CGCCAGTTCTGCTTACC-3’) and Rust2inv (5’-GATGAAGAACACAGTGAAA-3’) [<xref ref-type="bibr" rid="scirp.110196-ref9">9</xref>]. Polymerase chain reactions of LSU rDNA were conducted in an Amplitronyx&#174;6 thermal cycler (Nyx-Technik, San Diego, California, USA) using a final volume of 20 μl. Each reaction contained 1 μl of DNA extract, 5 pmoles of each primer, 2.5 mM of each dNTP, 2 mM MgCl<sub>2</sub>, 1X PCR buffer (KCl), 1 unit of Taq DNA polymerase (Thermo Scientific, Waltham, MA, USA), and sterile distilled water. Cycling conditions were: 5 min at 94˚C; 35 cycles of 1 min at 94˚C; 1 min at 55˚C; 1 min at 72˚C and a final elongation step of 2 min at 72˚C. PCR blank reaction control without template DNA was always incorporated. The PCR products were visualized on 1.0% agarose gel and stained with GelRed (Biotium Inc., Hayward, CA, USA). The amplified PCR products were purified and sequenced by Macrogen (Macrogen, Geumcheon-gu, South Korea). The nucleotide sequences were visualized and edited using the 4 Peaks software (http://nucleobytes.com). A BLASTn analysis was used to compare the DNA sequence obtained of the rust fungus isolates from Socoroma with rDNA D1/D2 data sequences available in GenBank (http://www.ncbi.nlm.nih.gov/).</p><p>Phylogenetic reconstruction was performed using the maximum likelihood algorithm, using Molecular Evolutionary Genetics Analysis (MEGA version 6.0) software [<xref ref-type="bibr" rid="scirp.110196-ref10">10</xref>], and the robustness of the branches was assessed by bootstrap analysis [<xref ref-type="bibr" rid="scirp.110196-ref11">11</xref>] of 1000 replicates. The sequence of Encyclometra sp. (KY781819) was used as an outgroup.</p></sec></sec><sec id="s3"><title>3. Results</title><sec id="s3_1"><title>3.1. Taxonomy</title><p>Uropyxis daleae (Dietel &amp; Holw.) Magnus var. nova socoromensis.</p><p>Holotype. Dalea pennelli (Mac Bride) Mac Bride var. chilensis Barneby, Socoroma, Arica and Parinacota, Chile, Sep. 2017, leg. G. Sep&#250;lveda 101 ColMic-UTA 183. The specimen was deposited as a dried specimen in the the mycological collection of Universidad de Concepci&#243;n Herbarium (CONC-F 1894).</p><p>Etymology. From the Andean village of Socoroma, in reference to the collection site (<xref ref-type="fig" rid="fig1">Figure 1</xref>).</p></sec><sec id="s3_2"><title>3.2. Description</title><p>Uredinial stage with amphiphigenous subepidermal uredinia with inconspicuous rupture of the epidermis, reddish to tan-brown, pulverulent, solitary or in small groups, round to oblong. Paraphyses not observed. Ellipsoid to obovoid urediniospores, hyaline to pale yellow, of 22 - 28 &#215; 20 - 23 &#181;m, finely echinulate wall of 2 - 2.5 &#181;m of thickness, golden brown with 5 to 8 scattered germinative pores (<xref ref-type="table" rid="table1">Table 1</xref>).</p><p>Telia were anfigenous, subepidermal in origin, with inconspicuous epidermal rupture, dark brown to black, predominantly hypophyllous, frequently coming from uredinium, pulvinate, paraphyses were absent-Teliopores were bicellular, ellipsoid to oblong, 32 - 50 &#215; 25 - 30 &#181;m. Uniform laminate wall, with scattered warts, 2.5 &#181;m thick and hyaline, two germinating pores per cell; fragile pedicel, 30 - 35 &#181;m long, hygroscopic at the point of union with the spore, up to 23 μm wide, hyaline in color. Spermogonia (pycnial) and aecia were absent.</p></sec><sec id="s3_3"><title>3.3. Specimens Studied</title><p>Fresh leaves of Dalea pennelli (Mac Bride) Mac Bride var. chilensis Barneby, Socoroma, Arica and Parinacota, Chile. 2017, Province of Parinacota, Socoroma, S lat. 18˚16'38'', W 69˚35'28'', 3200 m asl. Leg. et det. W. Huanca-Mamani &amp; G. Sep&#250;lveda, (CONC-F 1894).</p><p>Spermogonia (pycnia) and aecia were not detected. Sori containing teliospores, hypophyllous subepidermic, erumpents, small, dark brown, 1 - 2.1 &#215; 1 - 1.8 mm, powdery, non-paraphysated (<xref ref-type="fig" rid="fig2">Figure 2</xref>). Teliospores elipsoides to oblong 32 - 50 &#215; 25 - 30 &#181;m, echinulated, dark brown, two germinative pores per</p><table-wrap id="table1" ><label><xref ref-type="table" rid="table1">Table 1</xref></label><caption><title> Morphological characterization of the telia and teliospores of Uropyxis daleae var socoromensis isolates from Dalea pennelli var. chilensis collected in Socoroma, an Andean village located at 3500 m asl near Arica in Northern Chile</title></caption><table><tbody><thead><tr><th align="center" valign="middle" >Criteria</th><th align="center" valign="middle" >U. daleae<sup>1</sup></th><th align="center" valign="middle" >U. daleae var. socoromensis</th></tr></thead><tr><td align="center" valign="middle"  colspan="3"  >Teliospores</td></tr><tr><td align="center" valign="middle" >Size</td><td align="center" valign="middle" >35 - 50 &#215; 24 - 30 &#181;m</td><td align="center" valign="middle" >32 - 50 &#215; 25 - 30 &#181;m</td></tr><tr><td align="center" valign="middle" >Shape</td><td align="center" valign="middle" >Ellipsoid</td><td align="center" valign="middle" >Ellipsoid to oblong</td></tr><tr><td align="center" valign="middle" >Spore surface</td><td align="center" valign="middle" >Verrucose, echinulate</td><td align="center" valign="middle" >Verrucose, echinulate</td></tr><tr><td align="center" valign="middle" >Spore ends</td><td align="center" valign="middle" >Rounded</td><td align="center" valign="middle" >Rounded</td></tr><tr><td align="center" valign="middle" >Wall</td><td align="center" valign="middle" >Laminate</td><td align="center" valign="middle" >Laminate</td></tr><tr><td align="center" valign="middle" >Wall thickness</td><td align="center" valign="middle" >4 - 6 &#181;m</td><td align="center" valign="middle" >1.3 - 3.3 mm</td></tr><tr><td align="center" valign="middle" >Wall inner layer</td><td align="center" valign="middle" >Dark brown</td><td align="center" valign="middle" >Dark brown</td></tr><tr><td align="center" valign="middle" >Wall outer layer</td><td align="center" valign="middle" >Yellowish</td><td align="center" valign="middle" >Hyaline to yellowish</td></tr><tr><td align="center" valign="middle" >Pedicel attachment</td><td align="center" valign="middle" >Swelling</td><td align="center" valign="middle" >Swelling</td></tr><tr><td align="center" valign="middle" >Pedicel wideness</td><td align="center" valign="middle" >15 - 20 &#181;m</td><td align="center" valign="middle" >23 &#181;m</td></tr><tr><td align="center" valign="middle" >Pedicel length</td><td align="center" valign="middle" >35 &#181;m</td><td align="center" valign="middle" >30 - 35 &#181;m</td></tr><tr><td align="center" valign="middle" >Germinative pores per cell</td><td align="center" valign="middle" >2</td><td align="center" valign="middle" >2</td></tr><tr><td align="center" valign="middle" >Septum constriction</td><td align="center" valign="middle" >Slightly or absent</td><td align="center" valign="middle" >Slightly or absent</td></tr><tr><td align="center" valign="middle"  colspan="3"  >Telia</td></tr><tr><td align="center" valign="middle" >Size</td><td align="center" valign="middle" >0.5 - 1.0 mm in diameter</td><td align="center" valign="middle" >1 - 2.1 &#215; 1 - 1.8 mm</td></tr><tr><td align="center" valign="middle" >Color</td><td align="center" valign="middle" >Brown to black</td><td align="center" valign="middle" >Dark brown to black</td></tr><tr><td align="center" valign="middle" >Aspect</td><td align="center" valign="middle" >Pulverulent</td><td align="center" valign="middle" >Pulverulent</td></tr><tr><td align="center" valign="middle" >Origin</td><td align="center" valign="middle" ></td><td align="center" valign="middle" >Subepidermic</td></tr><tr><td align="center" valign="middle" >Paraphyses</td><td align="center" valign="middle" >Peripheral</td><td align="center" valign="middle" >Non observed</td></tr></tbody></table></table-wrap><p><sup>1</sup>Based on Baxter’s description (1959) [<xref ref-type="bibr" rid="scirp.110196-ref12">12</xref>].</p><p>cell, walls of uniform thickness 1.3 - 3.3 mm, the majority 2.5 mm thick, pedicellated, hyaline pedicels, campanulated lateral wall of 14.3 - 10 mm of thickness, the majority of 12.5 mm thicks (<xref ref-type="fig" rid="fig3">Figure 3</xref>).</p><p>To confirm the morphological identification, a PCR fragments of LSU rDNA of isolates from Socoroma were successfully amplified and sequenced, obtaining fragments of LSU of 1446, 1456 and 1443 bp, which were deposited in the GenBank (Accession number MG969964, MN337264 and MN337263, respectively). A BLAST search showed 91.20% similarity of the isolates Socoroma with Uropyxis daleae (KY798364) and 87.85%, 87.78%, and 87.76% with Puccinia ocimi, P. unciniarum, and P. caricis, respectively (KY764149, KX985746, and KX798380). The phylogenetic analysis using sequences of the LSU rDNA grouped the isolates Socoroma in a different cluster from other rust fungi, and it was phylogenetically close to the reference isolate of U. daleae (KY798364) (<xref ref-type="fig" rid="fig4">Figure 4</xref>).</p></sec></sec><sec id="s4"><title>4. Discussion</title><p>In this study, a rust fungus attacking D. pennelli (“retamilla”) was characterized and identified as Uropyxis daleae, and based on morphological and molecular differences, a new variety, U. daleae var. socoromensis, is proposed. Rust fungi are very specific obligate parasites. To our knowledge, U. daleae var. socoromensis was only found on “retamilla” growing above 3500 m asl in the Andes Mountains in Northern Chile, where a high frequency of endemic plant species, animals, and fungi have been described [<xref ref-type="bibr" rid="scirp.110196-ref13">13</xref>]. Therefore, it is possible that this new variety of U. daleae may have coevolved in situ with its plant host. At present, “retamilla” grows as a wild shrub; however, it has a high potential as an ornamental plant.</p><p>The genus Uropyxis J. Schr&#246;t. (Basidiomycota, Pucciniales, Uropyxidaceae), was first distinguished from Puccinia spp. in 1875 by the presence of teliospores with two germination pores in each cell [<xref ref-type="bibr" rid="scirp.110196-ref11">11</xref>]. Nowadays, 30 species have been identified in the genus Uropyxis, two var. in U. steudneri and three in U. daleae. The recognized varieties of U. daleae are africana, daleae, and eysenhardtiae (Index Fungorum 2019, http://www.indexfungorum.org/, Mycobank 2019, http://www.mycobank.org/).</p><p>Based on morphological and msolecular results obtained in this study, U. daleae var. socoromensis is described as a new fungal variety. The main distinguishing characters of U. daleae var. socoromensis are the bigger urediniospores with uniform walls up to 2.5 μm thick, uredinia with scattered paraphyses, and teliospores up to 50 μm long. It differs from U. daleae (Dietel &amp; Holway) Magn. var. daleae by the size of the urediniospores and the wall, longer teliospores with smaller wall size, and telia lack of paraphysis. It differs from U. daleae (Dietel &amp; Holway) J.W. Baxter var. erysenhardtiae by the absence of spermogonia, aecia uredinoid, and the urediniospore size and wall thickness.</p><p>The presence of uredinia distinguishes U. daleae var. socoromensis from U. farlowii (Arthur) J.W. Baxter, a rust fungus that is also parasite Dalia spp., but apparently lacks of the uredinial stage.</p><p>Therefore, Uropyxis daleae var. socoromensis is described for the first time attacking D. pennelli var. chilensis in Northern Chile. Previously, only U. naumanniana has been reported in southern Chile [<xref ref-type="bibr" rid="scirp.110196-ref14">14</xref>].</p></sec><sec id="s5"><title>Acknowledgements</title><p>We thank to Professor B. Arriaza and Professor E. Belmonte, Universidad de Tarapac&#225;, Arica, Chile, for their help with SEM image, and the identification of Dalea pennellii, respectively. This work was funded by Gobierno de Chile, Ministerio de Educaci&#243;n, Convenio Desempe&#241;o en Educaci&#243;n Superior UTA1795 (Arica-Chile).</p></sec><sec id="s6"><title>Conflicts of Interest</title><p>The authors declare no competing interests.</p></sec><sec id="s7"><title>Cite this paper</title><p>Sep&#250;lveda, G., Huanca-Mamani, W., Arismendi, M., Salazar, M. and Latorre, B.A. (2021) A New Report of Uropyxis daleae in the Andes Range Mountains of Atacama Desert, Chile. Advances in Microbiology, 11, 327-334. https://doi.org/10.4236/aim.2021.116025</p></sec></body><back><ref-list><title>References</title><ref id="scirp.110196-ref1"><label>1</label><mixed-citation publication-type="other" xlink:type="simple">Barneby, R.C. (1990) Two New Taxa in Dalea (Fabaceae: Amorpheae) from Southern Mexico and Northern Chile. 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