Uneingeschränkter Zugang

The use of 18S ribosomal DNA, ITS and rbcL molecular markers to study the genus Dunaliella (Dunaliellaceae) in Iranian samples: A phylogenetic approach

Jaber Dehghani
Jaber Dehghani
, 
Ehsan Atazadeh
Ehsan Atazadeh
, 
Yadollah Omidi
Yadollah Omidi
 und 
Ali Movafeghi
Ali Movafeghi
   | 06. März 2020
Oceanological and Hydrobiological Studies's Cover Image
Über diesen Artikel
Vorheriger Artikel
Nächster Artikel
Zitieren
Article Category: Short communication
Online veröffentlicht: 06. März 2020
Seitenbereich: 88 - 98
Eingereicht: 07. Juni 2019
Akzeptiert: 01. Okt. 2019
DOI: https://doi.org/10.1515/ohs-2020-0009
© 2020 Faculty of Oceanography and Geography, University of Gdańsk, Poland
This work is licensed under the Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International License.

Figure 1

Morphological characteristics of microalgae. D. salina isolate BAK (from Lake Bakhtegan) at 1M NaCl (a) and at 5M NaCl (b); and D. pseudosalina isolate MAH (from Lake Maharlu) at 1M NaCl (c) and at 5M NaCl (d). f – flagella and s – stigma
Morphological characteristics of microalgae. D. salina isolate BAK (from Lake Bakhtegan) at 1M NaCl (a) and at 5M NaCl (b); and D. pseudosalina isolate MAH (from Lake Maharlu) at 1M NaCl (c) and at 5M NaCl (d). f – flagella and s – stigma

Figure 2

PCR products of 18S rDNA and ITS (~2500 bp) in D. pseudosalina isolate MAH and D. salina isolate BAK (a). RFLP pattern of PCR products presented in gel after digestion by Hhal (restriction enzyme) (b). PCR products of rbcL gene (~900 bp) in D. pseudosalina isolate MAH and D. salina isolate BAK (c). “Lan” 1 indicates the 18S rDNA PCR product of D. salina isolate BAK and “L” indicates Ladder
PCR products of 18S rDNA and ITS (~2500 bp) in D. pseudosalina isolate MAH and D. salina isolate BAK (a). RFLP pattern of PCR products presented in gel after digestion by Hhal (restriction enzyme) (b). PCR products of rbcL gene (~900 bp) in D. pseudosalina isolate MAH and D. salina isolate BAK (c). “Lan” 1 indicates the 18S rDNA PCR product of D. salina isolate BAK and “L” indicates Ladder

Figure 3

The 18S rDNA based phylogenetic tree. The tree was obtained by the ML method (K2 + G model) with 500 bootstrap replications. The capital letters (A–D) show the clades.
The 18S rDNA based phylogenetic tree. The tree was obtained by the ML method (K2 + G model) with 500 bootstrap replications. The capital letters (A–D) show the clades.

Figure 4

The ITS based phylogenetic tree. The tree was obtained by the ML method (K2 + G model) with 500 bootstrap replications. The capital letters (A–D) show the clades.
The ITS based phylogenetic tree. The tree was obtained by the ML method (K2 + G model) with 500 bootstrap replications. The capital letters (A–D) show the clades.

Figure 5

The rbcL based phylogenetic tree. The tree was obtained by the ML method (T92 + G model) with 500 bootstrap replications. The capital letters (A–D) indicate the clades.
The rbcL based phylogenetic tree. The tree was obtained by the ML method (T92 + G model) with 500 bootstrap replications. The capital letters (A–D) indicate the clades.

Figure 6

Combined 18S rDNA, ITS and rbcL based phylogenetic tree. The tree was drawn using the ML method (TN93 + G model) with 500 bootstrap replications. The capital letters (A–D) indicate the clades.
Combined 18S rDNA, ITS and rbcL based phylogenetic tree. The tree was drawn using the ML method (TN93 + G model) with 500 bootstrap replications. The capital letters (A–D) indicate the clades.

The 18S rDNA sequences of Dunaliella spp. from the NCBI database

Dunaliella spp. Gene size (bp) Accession number Geographic origin
D. bardawil strain KMMCC 1346 2054 JQ315779.1 Republic of Korea
D. bardawil UTEX LB 2538 2088 DQ009777.1 USA
D. bioculata UTEX LB 199 1687 DQ009761.1 USA
D. parva 2585 M62998.1 Unknown
D. peircei strain UTEX LB 2192 2065 DQ009778.1 USA
D. primolecta UTEX 1000 1620 KJ018734.1 USA
D. salina strain KMMCC 1428 1647 JQ315781.1 Korea
Dunaliella sp. ABRIINW M1/2 2120 EU678868.1 Iran
D. salina UTEX LB 200 2065 DQ009779.1 USA
D. salina strain KU07 2069 KF825551.1 Thailand
D. salina strain KU11 2067 KF825550.1 Thailand
D. salina strain KU13 2068 KF825552.1 Thailand
D. salina isolate BAK 1784 KU641617 Iran
Dunaliella sp. SAS11133 1722 KF054056.1 China
D. pseudosalina isolate MAH 1735 KU641615 Iran
D. salina isolate BAK 1784 KU641617.1 Iran
Asteromonas gracilis isolate BA 1687 KU351659.1 Iran
D. viridis strain CONC002 2494 DQ009776.1 USA
D. tertiolecta CCMP 364 1620 KJ018735.1 USA
D. tertiolecta UTEX 999 1620 KJ018733.1 USA
Chlamydomonas reinhardtii 1641 AB701555 Japan
D. lateralis strain Nepal 1692 DQ009762.1 USA
Chlorella vulgaris 1770 KJ756813 UK
D. polymorpha 2991 KJ756825.1 UK

ITS1 and ITS 2 sequences of Dunaliella spp. from the NCBI database

Dunaliella spp. ITS1 size ITS2 size Accession number Geographic origin
D. bardawil strain KMMCC 1346 214 230 JQ315779.1 Republic of Korea
D. bardawil UTEX 2538 210 232 DQ377085.1 USA
D. biocolata strain UTEX 199 209 328 DQ377086.1 USA
D. parva 213 226 DQ116746 China
D. peircei strain UTEX 2192 210 226 AF313442.1 Chile
D. primolecta UTEX 1000 210 328 DQ377092.1 USA
D. acidophila strain CCAP 19/35 213 232 HM060646.1

indicates ITS1

 Spain
HM060645.1

indicate ITS2 accession number
D. salina strain KMMCC 1428 214 227 JQ315781.1 Republic of Korea
Dunaliella sp. ABRIINW M1/2 220 225 EU927373.1 Iran
D. Salina UTEX 200 209 227 DQ313197.1 Chile
D. salina strain KU07 159 229 KF825555.2 Thailand
D. salina strain KU11 159 229 KF825549.1 Thailand
D. salina strain KU13 159 229 KF825547.1 Thailand
D. salina isolate BAK 216 233 KU641617 Iran
Dunaliella sp. SAS11133 204 230 KF054058.1 China
D. pseudosalina isolate MAH 212 225 KU641615 Iran
Asteromonas gracilis isolate BA 214 230 KU351659.1 Iran
D. viridis strain CONC002 217 228 DQ377098.1 USA
D. tertiolecta CCMP 364 210 228 DQ377097.1 USA
D. tertiolecta UTEX 999 210 226 AF313434.1

indicates ITS1

 Chile
AF1313435.1

indicate ITS2 accession number
Chlamydomonas reinhardtii 205 244 U66954 Japan
D. lateralis strain Nepal 212 201 DQ377089.1 USA
Chlorella vulgaris 291 404 KJ756813 UK
D. polymorpha 213 227 KJ756825 UK

The rbcL sequences of Dunaliella spp. from the NCBI database

Dunaliella spp. rbcL size Accession number Geographic origin
Dunaliella bardawil strain KMMCC 1346 798 JQ315489.1 Republic of Korea
Dunaliella bardawil UTEX 2538 1038 DQ313194.1 USA
D. biocolata strain UTEX 199 1038 DQ313195.1 USA
D. parva 1040 DQ173091.1 Chila
D. peircei strain UTEX LB 2192 869 DQ313196.1 USA
D. primolecta UTEX 1000 1038 DQ313198.1 USA
D. acidophila strain CCAP 19/35 667 HQ142901.1 Spain
D. salina strain KMMCC 1428 894 JQ315491.1 Korea
Dunaliella sp. ABRIINW M1/2 1320 KC149893.1 Iran
D. salina UTEX 200 869 DQ313197.1 USA
D. salina strain KU07 427 KF825555.2 Thailand
D. salina strain KU11 613 KF825554.1 Thailand
D. salina strain KU13 632 KF825553.1 Thailand
D. salina isolate BAK 789 KU682279 Iran
Dunaliella sp. SAS11133 717 KF054057.1 China
D. pseudosalina isolate MAH 799 KU641616 Iran
D. viridis strain CONC002 1038 DQ313206.1 USA
D. tertiolecta CCMP 364 1038 DQ313204.1 USA
D. tertiolecta UTEX 999 1038 DQ313203.1 USA
Chlamydomonas reinhardtii 1128 AB511846 Japan
Chlorella vulgaris 1428 AB260909 Japan
Asteromonas gracilis 469 JN033249.1 Chile
eISSN:
1897-3191
Sprache:
Englisch
Zeitrahmen der Veröffentlichung:
4 Hefte pro Jahr
Fachgebiete der Zeitschrift:
Chemie, andere, Geowissenschaften, Biologie
Zeitschrift RSS Feed