Putatively asexual chrysophytes have meiotic genes: evidence from transcriptomic data

Chrysophytes are a large group of heterotrophic, phototrophic, or even mixotrophic protists that are abundant in aquatic as well as terrestrial environments. Although much is known about chrysophyte biology and ecology, it is unknown if they are sexual or not. Here we use available transcriptomes of 18 isolates of 15 putatively asexual species to inventory the presence of genes used in meiosis. Since we were able to detect a set of nine meiosis-specific and 29 meiosis-related genes shared by the chrysophytes, we conclude that they are secretively sexual and therefore should be investigated further using genome sequencing to uncover any missed genes from the transcriptomes.

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Sequence variants from whole genome sequencing a large group of Icelanders

Scientific Data ◽

10.1038/sdata.2015.11 ◽

2015 ◽

Vol 2 (1) ◽

Cited By ~ 36

Author(s):

Daniel F Gudbjartsson ◽

Patrick Sulem ◽

Hannes Helgason ◽

Arnaldur Gylfason ◽

Sigurjon A Gudjonsson ◽

...

Keyword(s):

Whole Genome Sequencing ◽

Genome Sequencing ◽

Sequence Variants ◽

Whole Genome ◽

Large Group

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Integrating DNA sequencing and transcriptomic data for association analyses of low-frequency variants and lipid traits

Human Molecular Genetics ◽

10.1093/hmg/ddz314 ◽

2020 ◽

Vol 29 (3) ◽

pp. 515-526 ◽

Cited By ~ 4

Author(s):

Tianzhong Yang ◽

Chong Wu ◽

Peng Wei ◽

Wei Pan

Keyword(s):

Gene Expression ◽

Whole Genome Sequencing ◽

Genome Sequencing ◽

Association Studies ◽

Low Frequency ◽

Genome Wide Association Studies ◽

Whole Genome ◽

Common Variants ◽

Transcriptomic Data ◽

Genome Wide

Abstract Transcriptome-wide association studies (TWAS) integrate genome-wide association studies (GWAS) and transcriptomic data to showcase their improved statistical power of identifying gene–trait associations while, importantly, offering further biological insights. TWAS have thus far focused on common variants as available from GWAS. Compared with common variants, the findings for or even applications to low-frequency variants are limited and their underlying role in regulating gene expression is less clear. To fill this gap, we extend TWAS to integrating whole genome sequencing data with transcriptomic data for low-frequency variants. Using the data from the Framingham Heart Study, we demonstrate that low-frequency variants play an important and universal role in predicting gene expression, which is not completely due to linkage disequilibrium with the nearby common variants. By including low-frequency variants, in addition to common variants, we increase the predictivity of gene expression for 79% of the examined genes. Incorporating this piece of functional genomic information, we perform association testing for five lipid traits in two UK10K whole genome sequencing cohorts, hypothesizing that cis-expression quantitative trait loci, including low-frequency variants, are more likely to be trait-associated. We discover that two genes, LDLR and TTC22, are genome-wide significantly associated with low-density lipoprotein cholesterol based on 3203 subjects and that the association signals are largely independent of common variants. We further demonstrate that a joint analysis of both common and low-frequency variants identifies association signals that would be missed by testing on either common variants or low-frequency variants alone.

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Zone-axis ALCHEMI for the rapid assessment of site occupancies in garnets

Proceedings, annual meeting, Electron Microscopy Society of America ◽

10.1017/s0424820100144905 ◽

1986 ◽

Vol 44 ◽

pp. 706-707

Author(s):

M.T. Otten ◽

P.R. Buseck

Keyword(s):

Single Crystals ◽

Rapid Assessment ◽

Site Occupancy ◽

Zone Axis ◽

Synthetic Compounds ◽

X Ray ◽

Large Group ◽

Crystallographic Planes

ALCHEMI (Atom Location by CHannelling-Enhanced Microanalysis) is a TEM technique for determining site occupancies in single crystals. The method uses the channelling of incident electrons along specific crystallographic planes. This channelling results in enhanced x-ray emission from the atoms on those planes, thereby providing the required site-occupancy information. ALCHEMI has been applied with success to spinel, olivine and feldspar. For the garnets, which form a large group of important minerals and synthetic compounds, the channelling effect is weaker, and significant results are more difficult to obtain. It was found, however, that the channelling effect is pronounced for low-index zone-axis orientations, yielding a method for assessing site occupancies that is rapid and easy to perform.

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An ecological basis for large group size in Colobus angolensis in the Nyungwe Forest, Rwanda

African Journal of Ecology ◽

10.1046/j.1365-2028.2001.00276.x ◽

2001 ◽

Vol 39 (1) ◽

pp. 83-92 ◽

Cited By ~ 10

Author(s):

Cheryl Fimbel ◽

Amy Vedder ◽

Ellen Dierenfeld ◽

Felix Mulindahabi

Keyword(s):

Group Size ◽

Large Group ◽

Colobus Angolensis ◽

Ecological Basis

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Genome Sequencing Set to Hunt for Alzheimer's Clues

Internal Medicine News ◽

10.1016/s1097-8690(12)70549-8 ◽

2012 ◽

Vol 45 (13) ◽

pp. 36

Author(s):

MICHELE G. SULLIVAN

Keyword(s):

Genome Sequencing

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International Human Genome Sequencing Consortium Publishes Sequence and Analysis of the Human Genome

PsycEXTRA Dataset ◽

10.1037/e634052007-001 ◽

2001 ◽

Keyword(s):

Human Genome ◽

Genome Sequencing ◽

Genome Sequencing Consortium ◽

Human Genome Sequencing ◽

International Human

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Pengembangan Bahan Ajar Matematika Bisnis Berbasis Komputer Untuk Mahasiswa Jurusan Akuntansi Politeknik Negeri Bali

Epigram ◽

10.32722/epi.v16i2.1971 ◽

2019 ◽

Vol 16 (2) ◽

pp. 99-110

Author(s):

I Made Wijana ◽

Anak Agung Putri Suardani ◽

I Gede Made Karma

Keyword(s):

Small Group ◽

Mathematics Teaching ◽

Needs Analysis ◽

Average Score ◽

Teaching Materials ◽

Initial Product ◽

Large Group ◽

Computer Based ◽

Large Groups ◽

Expert Validation

This research aims to produce prototype of computer-based business mathematics teaching materials to improve student achievement of Accounting Department, Politeknik Negeri Bali (PNB). In this research, to reach the target of teaching materials of computer-based business mathematics, the development using Borg and Gall method with some modifications into five steps: needs analysis and curriculum majoring in accounting, initial product development, education expert validation, small group trial , and large group trials. Trial of small group and large group by involving first semester student of Diploma IV Managerial Accounting Study Program, Accounting Department, PNB. Based on curriculum analysis and needs analysis, teaching materials are developed in the form of modules with Microsoft Excel application and the result of the initial product are five modules with topics of Formula, Linear and Non Linear Functions, Interest Calculation, Annuity, and Linear Programming. Education expert validation using five aspects resulted in an average score of 4.13 (good). Trial of the teaching materials by measuring student perceptions using three aspects for small groups resulted in an average score of 3.81 (good) and for large groups resulted in an average score of 4.23 (good). Furthermore, results of evaluation in large groups indicate a significant increase in mean of student scores from before and after using computer-based Business Mathematics teaching materials

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Pengembangan Perangkat Pembelajaran Matematika Model Pembelajaran Berbasis Masalah untuk Meningkatkan Kualitas Proses dan Hasil Belajar di SMP

Talenta Conference Series Science and Technology (ST) ◽

10.32734/st.v2i2.544 ◽

2019 ◽

Vol 2 (2) ◽

Author(s):

Rini Dian Anggraini ◽

Titi Solfitri

Keyword(s):

High School ◽

Small Group ◽

Junior High School ◽

Junior High ◽

Lesson Plan ◽

Mathematics Learning ◽

Research Use ◽

Large Group ◽

Statistics And Probability ◽

Group Trial

Penelitian ini bertujuan untuk mengembangkan perangkat pembelajaran matematika untuk sekolah menengah pertama yaitu kurikulum Silabus, Rencana Pembelajaran dan Lembar Kerja Siswa 2013 tentang statistik dan probabilitas dengan menggunakan model pembelajaran berbasis masalah. Penelitian ini menggunakan model pengembangan oleh Borg dan Gall yang dimodifikasi oleh Sugiyono (2008) melalui langkah-langkah: (1) potensi dan masalah; (2) pengumpulan data; (3) desain produk; (4) validasi desain; (5) revisi desain; (6) uji coba kelompok kecil; (7) revisi produk; (8) uji coba kelompok besar; (9) revisi produk. Pada tahap potensi dan masalah, para peneliti melakukan analisis potensi dan masalah. Kemudian, peneliti mengumpulkan data yang diperlukan sebagai referensi untuk desain perangkat pembelajaran matematika yang akan dikembangkan. Desain perangkat pembelajaran yang telah dikembangkan kemudian divalidasi oleh tiga validator dan direvisi berdasarkan saran validator. Hasil perancangan perangkat pembelajaran kemudian diujicobakan dalam uji coba kelompok kecil yang subjeknya 8 siswa kelas VII SMP Negeri 23 Pekanbaru. Setelah dicoba dalam uji coba kelompok kecil, kemudian direvisi berdasarkan kuesioner dari siswa yang mengikuti uji coba kelompok kecil. Setelah itu, para peneliti melakukan uji coba dalam kelompok besar yang subjeknya adalah 39 siswa kelas VII SMP Negeri 23 Pekanbaru, direvisi lagi dan disempurnakan. Berdasarkan hasil analisis dan diskusi data, perangkat pembelajaran yang telah dikembangkan valid yang nilai untuk Silabus adalah 3,39, rata-rata nilai untuk 5 Rencana Pelajaran adalah 3,41. Nilai rata-rata untuk 5 Lembar Kerja Siswa adalah 3,34. Lembar Kerja Siswa yang telah dikembangkan adalah persyaratan praktis yang memenuhi syarat untuk digunakan oleh siswa sekolah menengah pertama. This research aimed to develop mathematics learning device for junior high school that are Syllabus, Lesson Plan and Students Worksheet curriculum 2013 on statistics and probability by used problem based learning model. This research use development model by Borg and Gall modified by Sugiyono (2008) through the steps : (1) potentials and problems; (2) data collection; (3) design product; (4) validation of design; (5) revision of design; (6) small group trial; (7) revision of product; (8) large group trial; (9) revision of product. At potentials and problems stage, the researchers conducted analysis of potentials and problems. Then, researchers collect the necessary data as reference to design of mathematics learning device that will be developed. Design of learning device that had been developed then validated by three validators and revised based on validator suggestion. The result of learning device design and then try out in small group trial which subjects are 8 students of VII SMP Negeri 23 Pekanbaru. After try out in small group trial, then it revised based on questionnaire from the students who take the small group trial. After that, the researchers conducted try out in large group trial which subjects are 39 students of VII SMP Negeri 23 Pekanbaru, revised again and refined. Based on result of data analysis and discussion, learning device that had been developed is valid which value for Syllabus is 3,39, the average of value for 5 Lesson Plan are 3,41. The average of value for 5 Students Worksheet are 3,34. Students Worksheet that had been developed is qualify practical requirement to used by students of junior high school.

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