東華大學圖書館 |

語系: 繁體中文

說明(常見問題)

回圖書館首頁

手機版館藏查詢

登入

回首頁

切換: 標籤 | MARC模式 | ISBD

Analysis of fungal variations among ...

Dulin, Jason A.

FindBook

Google Book

Amazon

博客來

Analysis of fungal variations among communities using its primers.

紀錄類型:	書目-電子資源 : Monograph/item
正題名/作者:	Analysis of fungal variations among communities using its primers./
作者:	Dulin, Jason A.
出版者:	Ann Arbor : ProQuest Dissertations & Theses, : 2016,
面頁冊數:	44 p.
附註:	Source: Masters Abstracts International, Volume: 55-05.
Contained By:	Masters Abstracts International55-05(E).
標題:	Information science. -
電子資源:	http://pqdd.sinica.edu.tw/twdaoapp/servlet/advanced?query=10133497
ISBN:	9781339920726

Analysis of fungal variations among communities using its primers.
Dulin, Jason A.

Analysis of fungal variations among communities using its primers. - Ann Arbor : ProQuest Dissertations & Theses, 2016 - 44 p.

Source: Masters Abstracts International, Volume: 55-05.

Thesis (M.S.)--San Diego State University, 2016.

Fungi have critical roles in many ecosystems. They can be a threat to the health of humans and cause structural integrity issues in environments. Since most fungal diversity is unknown, there have been new methods to improve phylogenetic and non-phylogenetic analysis. The development of PCR primers for the Internal Transcribed Spacer (ITS), combined with next generation sequencing, has significantly improved the ability to profile fungal diversity of microbes. The high sequence variability within the ITS region allows for more accurate species identification. However, high variability makes multiple sequence alignment and phylogenetic analysis significantly less accurate between distant fungi. To solve this issue, a bioinformatics tool (ghost-tree) was applied. Ghost-tree integrates sequence data from two genetic markers into one phylogenetic tree, which can be used for reliable phylogenetic analysis. The main theme of the project is to determine if there are differences between these four fungal communities. In addition, it is a goal to determine which environments differ most significantly and the species driving these differences among communities. The alpha-diversity test concluded that the soil community had the greatest amount of different fungal species in one sample. Then, a beta-diversity test (UniFrac method) was applied and resulted in a 3D PCoA plot for visualization. A Kruskal-Wallis test was used to see if there were differences of means among the four environments. Then, a PERMANOVA test was conducted to determine environments that differ the most and which species made these environments different. By using pair-wise tests, it was determined that 4 groupings are significantly different from the environment being compared against: Leaf/Rhizosphere (p-value = .003), Leaf/Soil (p-value = .007), Insect/Rhizosphere (p-value = .009), and Insect/Leaf (p-value = .013). Focusing on Leaf/Rhizosphere, few species contributed a significant percent to the differences among the Leaf and Rhizosphere environments. It can be concluded that there are significant differences among the four communities, unknown species contribute significantly to these differences, and soil has the greatest fungal diversity within a sample. By increasing taxonomic resolution, further studies can focus on microbial shifts among fungal communities.

ISBN: 9781339920726Subjects--Topical Terms:

554358
Information science.

Analysis of fungal variations among communities using its primers.
LDR:03260nmm a2200301 4500 001 2126382
005 20171121080731.5
008 180830s2016 ||||||||||||||||| ||eng d
020 $a 9781339920726
035 $a (MiAaPQ)AAI10133497
035 $a AAI10133497
040 $a MiAaPQ $c MiAaPQ
100 1 $a Dulin, Jason A. $3 3288482
245 1 0 $a Analysis of fungal variations among communities using its primers.
260 1 $a Ann Arbor : $b ProQuest Dissertations & Theses, $c 2016
300 $a 44 p.
500 $a Source: Masters Abstracts International, Volume: 55-05.
500 $a Adviser: Scott Kelley.
502 $a Thesis (M.S.)--San Diego State University, 2016.
520 $a Fungi have critical roles in many ecosystems. They can be a threat to the health of humans and cause structural integrity issues in environments. Since most fungal diversity is unknown, there have been new methods to improve phylogenetic and non-phylogenetic analysis. The development of PCR primers for the Internal Transcribed Spacer (ITS), combined with next generation sequencing, has significantly improved the ability to profile fungal diversity of microbes. The high sequence variability within the ITS region allows for more accurate species identification. However, high variability makes multiple sequence alignment and phylogenetic analysis significantly less accurate between distant fungi. To solve this issue, a bioinformatics tool (ghost-tree) was applied. Ghost-tree integrates sequence data from two genetic markers into one phylogenetic tree, which can be used for reliable phylogenetic analysis. The main theme of the project is to determine if there are differences between these four fungal communities. In addition, it is a goal to determine which environments differ most significantly and the species driving these differences among communities. The alpha-diversity test concluded that the soil community had the greatest amount of different fungal species in one sample. Then, a beta-diversity test (UniFrac method) was applied and resulted in a 3D PCoA plot for visualization. A Kruskal-Wallis test was used to see if there were differences of means among the four environments. Then, a PERMANOVA test was conducted to determine environments that differ the most and which species made these environments different. By using pair-wise tests, it was determined that 4 groupings are significantly different from the environment being compared against: Leaf/Rhizosphere (p-value = .003), Leaf/Soil (p-value = .007), Insect/Rhizosphere (p-value = .009), and Insect/Leaf (p-value = .013). Focusing on Leaf/Rhizosphere, few species contributed a significant percent to the differences among the Leaf and Rhizosphere environments. It can be concluded that there are significant differences among the four communities, unknown species contribute significantly to these differences, and soil has the greatest fungal diversity within a sample. By increasing taxonomic resolution, further studies can focus on microbial shifts among fungal communities.
590 $a School code: 0220.
650 4 $a Information science. $3 554358
650 4 $a Bioinformatics. $3 553671
650 4 $a Medicine. $3 641104
690 $a 0723
690 $a 0715
690 $a 0564
710 2 $a San Diego State University. $b Bioinformatics and Medical Informatics. $3 3173001
773 0 $t Masters Abstracts International $g 55-05(E).
790 $a 0220
791 $a M.S.
792 $a 2016
793 $a English
856 4 0 $u http://pqdd.sinica.edu.tw/twdaoapp/servlet/advanced?query=10133497