Development and characterization of expressed sequence tag-simple sequence repeat markers for the near-threatened halophyte, Limonium tetragonum (Thunb.) A. A. Bullock (Plumbaginaceae)
Here, next-generation RNA sequencing analysis was performed to develop 13 novel expressed sequence tag-simple sequence repeat markers to evaluate the genetic variation in the near-threatened halophyte, Limonium tetragonum (Thunb.) A. A. Bullock. In the four populations, the total number of alleles a...
Saved in:
| Published in: | Genes & genetic systems |
|---|---|
| Main Authors: | , , , , |
| Format: | Journal Article |
| Language: | English |
| Published: |
02-11-2024
|
| Online Access: | Get full text |
| Tags: |
Add Tag
No Tags, Be the first to tag this record!
|
| Abstract | Here, next-generation RNA sequencing analysis was performed to develop 13 novel expressed sequence tag-simple sequence repeat markers to evaluate the genetic variation in the near-threatened halophyte, Limonium tetragonum (Thunb.) A. A. Bullock. In the four populations, the total number of alleles at each locus ranged from two to seven, with an average of 3.1 and average observed and expected heterozygosities ranged from 0.00 to 0.13 and 0.28 to 0.78, respectively. Three of thirteen loci had the same homo alleles within populations, however, different alleles among different populations. Compared to other halophytes, relatively low genetic diversity was observed in this species. Further studies are necessary to determine the population demography of L. tetragonum and clarify the cause of its low genetic diversity.Here, next-generation RNA sequencing analysis was performed to develop 13 novel expressed sequence tag-simple sequence repeat markers to evaluate the genetic variation in the near-threatened halophyte, Limonium tetragonum (Thunb.) A. A. Bullock. In the four populations, the total number of alleles at each locus ranged from two to seven, with an average of 3.1 and average observed and expected heterozygosities ranged from 0.00 to 0.13 and 0.28 to 0.78, respectively. Three of thirteen loci had the same homo alleles within populations, however, different alleles among different populations. Compared to other halophytes, relatively low genetic diversity was observed in this species. Further studies are necessary to determine the population demography of L. tetragonum and clarify the cause of its low genetic diversity. |
|---|---|
| AbstractList | Here, next-generation RNA sequencing analysis was performed to develop 13 novel expressed sequence tag-simple sequence repeat markers to evaluate the genetic variation in the near-threatened halophyte, Limonium tetragonum (Thunb.) A. A. Bullock. In the four populations, the total number of alleles at each locus ranged from two to seven, with an average of 3.1 and average observed and expected heterozygosities ranged from 0.00 to 0.13 and 0.28 to 0.78, respectively. Three of thirteen loci had the same homo alleles within populations, however, different alleles among different populations. Compared to other halophytes, relatively low genetic diversity was observed in this species. Further studies are necessary to determine the population demography of L. tetragonum and clarify the cause of its low genetic diversity.Here, next-generation RNA sequencing analysis was performed to develop 13 novel expressed sequence tag-simple sequence repeat markers to evaluate the genetic variation in the near-threatened halophyte, Limonium tetragonum (Thunb.) A. A. Bullock. In the four populations, the total number of alleles at each locus ranged from two to seven, with an average of 3.1 and average observed and expected heterozygosities ranged from 0.00 to 0.13 and 0.28 to 0.78, respectively. Three of thirteen loci had the same homo alleles within populations, however, different alleles among different populations. Compared to other halophytes, relatively low genetic diversity was observed in this species. Further studies are necessary to determine the population demography of L. tetragonum and clarify the cause of its low genetic diversity. |
| ArticleNumber | 24-00093 |
| Author | Hodoki, Yoshikuni Ohbayashi, Kako Takehara, Nonoka Ishikawa, Naoko Kurosawa, Takahide |
| Author_xml | – sequence: 1 givenname: Kako surname: Ohbayashi fullname: Ohbayashi, Kako – sequence: 2 givenname: Naoko surname: Ishikawa fullname: Ishikawa, Naoko – sequence: 3 givenname: Nonoka surname: Takehara fullname: Takehara, Nonoka – sequence: 4 givenname: Takahide surname: Kurosawa fullname: Kurosawa, Takahide – sequence: 5 givenname: Yoshikuni surname: Hodoki fullname: Hodoki, Yoshikuni |
| BookMark | eNpFUdlKxTAQDaLg-uYH5PEK9pqlTdtHd4UL-qDPZW46XbRNapKK-mV-nnEBYWAOM4dzmDm7ZNNYg4QccrbkQqmTtvVLkSaMsVJukB1eFCzJ8rzcjFimPMkzVWyTXe-fGBOsLOQO-bzAVxzsNKIJFExNdQcOdEDXf0DoraG2ofg2OfQea-rxZUajkQZoE9-P04D_M4cTQqAjuGd0njbW0dAhNQguCZ2LOzRRo4Po170HPKarfrSmn0caMDhorYlw8dDNZr08oqfL7zqbh8HqZ7q4H-ZxDW1vQCPg0T7ZamDwePDX98jj1eXD-U2yuru-PT9dJZqzQibARL7mpVqXpUwLlXGVgeRCFFqXjVSS5WmWCV0z3WhWZLWSNZa1ElBLaFgOco8sfnUnZ-OdPlRj7zUOAxi0s6-iWMpFxlMRqce_VO2s9w6banJ9_MZ7xVn1HVAVA6pEWv0EJL8AWU2IWw |
| Cites_doi | 10.1111/j.1469-8137.2008.02531.x 10.1093/bioinformatics/btx665 10.1038/nbt.1883 10.1007/s13205-018-1172-8 10.1093/bioinformatics/btu170 10.1017/CBO9780511808999 10.1093/aob/mcu267 10.1080/21664250.2021.1877916 10.1093/bioinformatics/bts460 10.1111/j.1471-8286.2004.00684.x 10.5897/JMPRX11.009 10.2144/96206st01 10.1266/ggs.23-00037 10.1126/science.1128035 10.1111/j.1439-0523.2006.01227.x 10.1002/aps3.1185 10.1046/j.1471-8286.2002.00300.x 10.1111/j.1755-0998.2011.03104.x 10.1093/oxfordjournals.jhered.a111573 |
| ContentType | Journal Article |
| DBID | AAYXX CITATION 7X8 |
| DOI | 10.1266/ggs.24-00093 |
| DatabaseName | CrossRef MEDLINE - Academic |
| DatabaseTitle | CrossRef MEDLINE - Academic |
| DatabaseTitleList | MEDLINE - Academic |
| DeliveryMethod | fulltext_linktorsrc |
| Discipline | Biology |
| EISSN | 1880-5779 |
| ExternalDocumentID | 10_1266_ggs_24_00093 |
| GroupedDBID | --- -~X .55 29H 2WC 36B 3O- 53G 5GY AAYXX ACGFO ACPRK ADBBV AENEX AHMBA ALMA_UNASSIGNED_HOLDINGS BAWUL BKOMP CITATION CS3 DIK DU5 E3Z EBD EBS EJD EMB EMOBN F5P GROUPED_DOAJ GX1 JMI JSF JSH KQ8 L7B MOJWN M~E OK1 PQQKQ RJT RNS RZJ SV3 TKC TR2 W2D X7M XSB 7X8 |
| ID | FETCH-LOGICAL-c1083-a027b196b9934865165a31228cc9f363074552cd0cfc085d63de9d62ad3af07a3 |
| ISSN | 1341-7568 1880-5779 |
| IngestDate | Wed Nov 06 04:41:45 EST 2024 Wed Nov 06 13:19:34 EST 2024 |
| IsDoiOpenAccess | false |
| IsOpenAccess | true |
| IsPeerReviewed | true |
| IsScholarly | true |
| Language | English |
| LinkModel | OpenURL |
| MergedId | FETCHMERGED-LOGICAL-c1083-a027b196b9934865165a31228cc9f363074552cd0cfc085d63de9d62ad3af07a3 |
| Notes | ObjectType-Article-1 SourceType-Scholarly Journals-1 ObjectType-Feature-2 content type line 23 |
| OpenAccessLink | https://doi.org/10.1266/ggs.24-00093 |
| PQID | 3124125142 |
| PQPubID | 23479 |
| ParticipantIDs | proquest_miscellaneous_3124125142 crossref_primary_10_1266_ggs_24_00093 |
| PublicationCentury | 2000 |
| PublicationDate | 20241102 |
| PublicationDateYYYYMMDD | 2024-11-02 |
| PublicationDate_xml | – month: 11 year: 2024 text: 20241102 day: 02 |
| PublicationDecade | 2020 |
| PublicationTitle | Genes & genetic systems |
| PublicationYear | 2024 |
| References | 22 23 24 25 26 27 10 11 12 13 14 15 16 17 18 19 1 2 3 4 5 6 7 8 9 20 21 |
| References_xml | – ident: 18 – ident: 7 doi: 10.1111/j.1469-8137.2008.02531.x – ident: 5 doi: 10.1093/bioinformatics/btx665 – ident: 9 doi: 10.1038/nbt.1883 – ident: 16 – ident: 21 doi: 10.1007/s13205-018-1172-8 – ident: 14 – ident: 3 doi: 10.1093/bioinformatics/btu170 – ident: 6 doi: 10.1017/CBO9780511808999 – ident: 8 doi: 10.1093/aob/mcu267 – ident: 12 doi: 10.1080/21664250.2021.1877916 – ident: 22 doi: 10.1093/bioinformatics/bts460 – ident: 26 doi: 10.1111/j.1471-8286.2004.00684.x – ident: 1 doi: 10.5897/JMPRX11.009 – ident: 4 doi: 10.2144/96206st01 – ident: 10 doi: 10.1266/ggs.23-00037 – ident: 17 – ident: 13 doi: 10.1126/science.1128035 – ident: 23 doi: 10.1111/j.1439-0523.2006.01227.x – ident: 11 – ident: 19 doi: 10.1002/aps3.1185 – ident: 15 – ident: 20 doi: 10.1046/j.1471-8286.2002.00300.x – ident: 2 doi: 10.1111/j.1755-0998.2011.03104.x – ident: 24 doi: 10.1093/oxfordjournals.jhered.a111573 – ident: 27 – ident: 25 |
| SSID | ssj0020983 |
| Score | 2.4102294 |
| Snippet | Here, next-generation RNA sequencing analysis was performed to develop 13 novel expressed sequence tag-simple sequence repeat markers to evaluate the genetic... |
| SourceID | proquest crossref |
| SourceType | Aggregation Database |
| Title | Development and characterization of expressed sequence tag-simple sequence repeat markers for the near-threatened halophyte, Limonium tetragonum (Thunb.) A. A. Bullock (Plumbaginaceae) |
| URI | https://www.proquest.com/docview/3124125142 |
| hasFullText | 1 |
| inHoldings | 1 |
| isFullTextHit | |
| isPrint | |
| link | http://sdu.summon.serialssolutions.com/2.0.0/link/0/eLvHCXMwtV1ba9swFBZpx2AvY1fWXYoGG7RkTh35_hjWlI6GdjAX-mYkWY5DqF3imK37Zft5O8ey5aR96R4GxoRjR0n0fdE5Rz4XQj6BxZ9GDg8tTzjCcvGvGElfWF4kRZAFLJMe5juf_gjOr8LjqTsdDLq-g73svyINMsAaM2f_AW0zKAjgNWAOZ0Adzg_CfSMKSOesmYrMv411qH414a9ga3aR1MM1n1vVAksF97KVusH9g2uM4FlVJiCxgCmz1jlam7BQptiOpQSwdJ-9GWBfLOrr4VqtV3xeYqA9GLFxXhcCU7qGkxEeWPUbVmK89B2WR4G9krhU3NSIau1lrIpdNfSEH4z5lm3paeMJXOSC32JDKB0asix7rueLJf_JtQop-wsxXyqcE_3UqiiXRjGdYWnP9i1wF88XqdrcFWFukx64sVGKZeYsL9CNakbqvuye6gBLBbCdz6sRjNbs9PQqsgsLOL9ITi5nsySeXsU75BGDxQ37NRx_OzNOvh01pV_NZ7XJFjD60ebY22bQthXQmDbxM_K09UnoRJPpORmo4gV5rLuU3r4kfzYoRYFS9C6laJlRQyna0Yf2lOplmlK0pRQFSlGgFL1DKWoo9YV2hKI9oeiBptMhnYzwaMlED7apdPiKXJ5M46-nVtvww5JjcAUsbrNAgEoQYDS7oe-NfY87Y8ZCKaPM8UEduZ7HZGrLTIKrkPpOqqLUZzx1eGYH3HlNdouyUG8IjTwm1DjELia-KwMlbOGmvuChI0Nf-OEe-dzNf3Kj67ok6A8DTgnglDA3aXDaIx87cBJYePFpGi9UWVcJfDEXvQOXvX3APe_Ik56m78nuelWrD2SnSuv9hj_7zWbQX2q3qUI |
| link.rule.ids | 315,782,786,866,27934,27935 |
| linkProvider | Flying Publisher |
| openUrl | ctx_ver=Z39.88-2004&ctx_enc=info%3Aofi%2Fenc%3AUTF-8&rfr_id=info%3Asid%2Fsummon.serialssolutions.com&rft_val_fmt=info%3Aofi%2Ffmt%3Akev%3Amtx%3Ajournal&rft.genre=article&rft.atitle=Development+and+characterization+of+expressed+sequence+tag-simple+sequence+repeat+markers+for+the+near-threatened+halophyte%2C+Limonium+tetragonum+%28Thunb.%29+A.+A.+Bullock+%28Plumbaginaceae%29&rft.jtitle=Genes+%26+genetic+systems&rft.au=Ohbayashi%2C+Kako&rft.au=Ishikawa%2C+Naoko&rft.au=Takehara%2C+Nonoka&rft.au=Kurosawa%2C+Takahide&rft.date=2024-11-02&rft.issn=1880-5779&rft.eissn=1880-5779&rft_id=info:doi/10.1266%2Fggs.24-00093&rft.externalDBID=NO_FULL_TEXT |
| thumbnail_l | http://covers-cdn.summon.serialssolutions.com/index.aspx?isbn=/lc.gif&issn=1341-7568&client=summon |
| thumbnail_m | http://covers-cdn.summon.serialssolutions.com/index.aspx?isbn=/mc.gif&issn=1341-7568&client=summon |
| thumbnail_s | http://covers-cdn.summon.serialssolutions.com/index.aspx?isbn=/sc.gif&issn=1341-7568&client=summon |